Citrus Sinensis ID: 041042

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------27
Protein Sequence
MVQFNLKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGEPIIDF
Secondary Structure (PSIPRED)
cEEEEEEEEEHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEccccccccEEEEcccccccccccccccccccEEEEEEEccEEEEEEEEEccccccccccHHHHHHcccEEEEEEEcccHHHHHHHHHHHHHHHHHccccEEEEEEEcccccccccccccEEEHHHHHHHHHHHcccEEEccccccccHHHHHHHHHHHHHccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEEEccccccccccccccccccccccccccccccccccccHHHHEEEEEEEEccccccHHHHHHEHcccccccccEEEEEEEEEEEEEEEcccEEEEEEEEcccccHEEEEEHHHHccccEEEEEEEcccHcHHHHHHHHHHHHHHHccccEEEEEEccccccccccccccEccHHHHHHHHHHccccEEEcccHHcccHHHHHHHHHHHHHHHHHcccccccccccEEcc
Coil and Loop (DISEMBL)
MVQFNLKRRIERGVLILRRCISCFWEKLLMCsvgkpiryrmlprstvtspspsvlesglvpgttvrpslchshrhldADNLVALKISLlgdchigktsFLEKyvgdekeqggspgeglnmmdKTLLVRGARISYSIWevtgdakaqdhlpvacKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQtaipiiigtkfddfiqlpIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKlfdipwtlernltigepiidf
Flexible Loop (DISEMBL)
mvqfnlkrriergvliLRRCISCFWEKLLMCSVGKPIRYRMLprstvtspspsvlesglvPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSflekyvgdekeqggspgeglnMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKlfdipwtlernltigepiidf
Low Complexity Region (SEG)
MVQFNLKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLPRstvtspspsvLESGLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGEPIIDF
Disordered region (IsUnstruct)
****NLKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLP***************LVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVG**************MMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGEPI***
Disordered Region (DISOPRED)
*VQFNLKRRIERGVLILRRCISCFWEKLLM***************************************************VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF**************PIIDF
Disordered Region (DISEMBL)
MVQFNLKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVG********PGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGEPIIDF
Disordered Region (DISPRO)
MVQFNLKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLPRSTV***************************HLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTL*******E*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVQFNLKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGEPIIDF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	268	2.2.26 [Sep-21-2011]
P87027	198	Septum-promoting GTP-bind	yes	no	0.705	0.954	0.433	1e-44
P38987	245	Protein TEM1 OS=Saccharom	yes	no	0.705	0.771	0.359	2e-30
Q9UL26	194	Ras-related protein Rab-2	yes	no	0.611	0.845	0.255	9e-12
P35285	194	Ras-related protein Rab-2	yes	no	0.611	0.845	0.25	2e-11
P51154	194	Ras-related protein Rab-2	yes	no	0.611	0.845	0.255	2e-11
Q9VP48	388	Ras-related protein Rab-2	no	no	0.447	0.309	0.327	8e-11
Q921E2	194	Ras-related protein Rab-3	no	no	0.589	0.814	0.244	2e-10
O80501	208	Ras-related protein RABH1	no	no	0.608	0.783	0.230	2e-10
Q6GQP4	194	Ras-related protein Rab-3	yes	no	0.589	0.814	0.244	2e-10
Q13636	194	Ras-related protein Rab-3	no	no	0.589	0.814	0.244	2e-10

>sp|P87027|SPG1_SCHPO Septum-promoting GTP-binding protein 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=spg1 PE=1 SV=1

 Score =  180 bits (456), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 82/189 (43%), Positives = 127/189 (67%)

Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
           N V +K+ ++GD  IGKTS +  YV    ++  +   G+N M+KT+ +R   I++SIW++
Sbjct: 7   NNVTIKVGMIGDSSIGKTSLMVTYVQGSFDEESTQTLGVNFMEKTISIRNTEITFSIWDL 66

Query: 140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD 199
            G  +  + LP+ C D++AILFMFDL+ + TL S+  WY+QAR  N+TA+PI+IGTK+D 
Sbjct: 67  GGQREFVNMLPMVCNDAVAILFMFDLSRKSTLNSIKEWYRQARGFNKTAVPILIGTKYDH 126

Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
           F+  P + Q  I  QAR YAKA+ A+L F S +++INV KI K + AK+FD+  T+    
Sbjct: 127 FMTFPREDQEEITKQARRYAKAMKASLVFCSTSHSINVQKIFKIVLAKVFDLKCTIPEIK 186

Query: 260 TIGEPIIDF 268
            +G+PI+++
Sbjct: 187 NVGDPILEY 195

GTP-binding protein essential for the induction of septum formation at G2 and pre-START stages of mitosis. Acts via the cdc7 protein kinase pathway.
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P38987|TEM1_YEAST Protein TEM1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TEM1 PE=1 SV=1

 Score =  132 bits (333), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 68/189 (35%), Positives = 112/189 (59%)

Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
           N V +++ L+GD  +GKTS + KYV +  ++  +   G+N + + + +R   I +SI ++
Sbjct: 17  NQVEVQVGLVGDAQVGKTSLMVKYVQNIYDKEYTQTLGVNFLKRKVSIRSTDIIFSIMDL 76

Query: 140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD 199
            G  +  + LP+A   S  I+F+FDLT   TL S+  WY+QA   N +AIPI++GTK+D 
Sbjct: 77  GGQREFINMLPIATVGSSVIIFLFDLTRPETLSSIKEWYRQAYGLNDSAIPILVGTKYDL 136

Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I L  + Q  I+  +  YA+ +NA L F S   +IN+ KI K   AK+F++  T+    
Sbjct: 137 LIDLDPEYQEQISRTSMKYAQVMNAPLIFCSTAKSINIQKIFKIALAKIFNLTLTIPEIN 196

Query: 260 TIGEPIIDF 268
            IG+P++ +
Sbjct: 197 EIGDPLLIY 205

GTP-binding protein involved in termination of M phase. May play a role in triggering the degradation of G2 cyclin to inactivate M-phase promoting factor at the termination of mitosis. Acts upstream of CDC15 kinase and may be required to activate the CDC15 protein kinase pathway.

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

>sp|Q9UL26|RB22A_HUMAN Ras-related protein Rab-22A OS=Homo sapiens GN=RAB22A PE=1 SV=2

 Score = 70.9 bits (172), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 43/168 (25%), Positives = 84/168 (50%), Gaps = 4/168 (2%)

Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           L  LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW+  
Sbjct: 3   LRELKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTA 62

Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF 200
           G  + +   P+  + S A + ++D+T   T  ++  W ++ R+     I + I     D 
Sbjct: 63  GQERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVKELRQHGPPNIVVAIAGNKCDL 122

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
               ID++  +   A+ YA +++A    +SA   IN+N++   I+ ++
Sbjct: 123 ----IDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 166

Homo sapiens (taxid: 9606)

>sp|P35285|RB22A_MOUSE Ras-related protein Rab-22A OS=Mus musculus GN=Rab22a PE=1 SV=2

 Score = 69.7 bits (169), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/168 (25%), Positives = 84/168 (50%), Gaps = 4/168 (2%)

Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           L  LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW+  
Sbjct: 3   LRELKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTA 62

Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF 200
           G  + +   P+  + S A + ++D+T   T  ++  W ++ R+    +I + I     D 
Sbjct: 63  GQERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDL 122

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                D++  +   A+ YA +++A    +SA   IN+N++   I+ ++
Sbjct: 123 ----TDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 166

Mus musculus (taxid: 10090)

>sp|P51154|RB22A_CANFA Ras-related protein Rab-22A OS=Canis familiaris GN=RAB22A PE=1 SV=1

 Score = 69.7 bits (169), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/168 (25%), Positives = 83/168 (49%), Gaps = 4/168 (2%)

Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           L  LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW+  
Sbjct: 3   LRELKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTA 62

Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF 200
           G    +   P+  + S A + ++D+T   T  ++  W ++ R+     I + I     D 
Sbjct: 63  GQEAFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVKELRQHGPPNIVVAIAGNKCDL 122

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
               ID++  +   A+ YA +++A    +SA   IN+N++   I+ ++
Sbjct: 123 ----IDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 166

Canis familiaris (taxid: 9615)

>sp|Q9VP48|RAB26_DROME Ras-related protein Rab-26 OS=Drosophila melanogaster GN=Rab26 PE=2 SV=2

 Score = 67.8 bits (164), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 40/122 (32%), Positives = 65/122 (53%), Gaps = 2/122 (1%)

Query: 79  DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGG-SPGEGLNMMDKTLLVRGARISYSIW 137
           D+ V  K  LLGD  +GKTSFL KY   E   G  S   G+ + +K ++V G R+   IW
Sbjct: 186 DDTVNHKTILLGDSGVGKTSFLVKYNTGEFRLGSFSATVGIALTNKVVVVDGTRVKLQIW 245

Query: 138 EVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPII-IGTK 196
           +  G  + +       +D+ A+L ++D+T++ T  ++  W  + R+  Q  + I+ IG K
Sbjct: 246 DTAGQERFRSVTHAYYRDAHALLLLYDVTNKTTYDNIRAWLGEIREYAQEDVVIVLIGNK 305

Query: 197 FD 198
            D
Sbjct: 306 AD 307

Participates in exocrine secretion.

Drosophila melanogaster (taxid: 7227)

>sp|Q921E2|RAB31_MOUSE Ras-related protein Rab-31 OS=Mus musculus GN=Rab31 PE=1 SV=1

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/168 (24%), Positives = 86/168 (51%), Gaps = 10/168 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ LLGD  +GK+S + ++V D  +   SP  G + M KT+        + IW+  G  
Sbjct: 6   LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 65

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFD--DF 200
           +     P+  + S A + ++D+T + +  ++ +W ++ ++   +  +  I G K D  D 
Sbjct: 66  RFHSLAPMYYRGSAAAVIVYDITKQDSFHTLKKWVKELKEHGPENIVMAIAGNKCDLSDI 125

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            ++P+         A+ YA+++ A +  +SA   IN+ ++ + I+ ++
Sbjct: 126 REVPL-------KDAKEYAESIGAIVVETSAKNAINIEELFQGISRQI 166

Mus musculus (taxid: 10090)

>sp|O80501|RAH1B_ARATH Ras-related protein RABH1b OS=Arabidopsis thaliana GN=RABH1B PE=1 SV=1

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 39/169 (23%), Positives = 79/169 (46%), Gaps = 6/169 (3%)

Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           L   K+  LGD  +GKTS + +++ D+ +       G++ + KT+ +    +   +W+  
Sbjct: 7   LAKYKLVFLGDQSVGKTSIITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 66

Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR-KCNQTAIPIIIGTKFDD 199
           G  + +  +P   +DS   + ++D+ SR +  +  +W  + R +     I +++G K D 
Sbjct: 67  GQERFRSLIPSYIRDSSVAVIVYDVASRQSFLNTTKWIDEVRTERGSDVIVVLVGNKTD- 125

Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                +D +     +A A A+ LN     +SA    N+  + + I A L
Sbjct: 126 ----LVDKRQVSIEEAEAKARELNVMFIETSAKAGFNIKALFRKIAAAL 170

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER). Binds GTP and GDP and possesses intrinsic GTPase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6GQP4|RAB31_RAT Ras-related protein Rab-31 OS=Rattus norvegicus GN=Rab31 PE=1 SV=2

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/168 (24%), Positives = 86/168 (51%), Gaps = 10/168 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ LLGD  +GK+S + ++V D  +   SP  G + M KT+        + IW+  G  
Sbjct: 6   LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 65

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFD--DF 200
           +     P+  + S A + ++D+T + +  ++ +W ++ ++   +  +  I G K D  D 
Sbjct: 66  RFHSLAPMYYRGSAAAVIVYDITKQDSFHTLKKWVKELKEHGPENIVMAIAGNKCDLSDI 125

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            ++P+         A+ YA+++ A +  +SA   IN+ ++ + I+ ++
Sbjct: 126 REVPL-------KDAKEYAESIGALVVETSAKNAINIEELFQGISRQI 166

Rattus norvegicus (taxid: 10116)

>sp|Q13636|RAB31_HUMAN Ras-related protein Rab-31 OS=Homo sapiens GN=RAB31 PE=1 SV=1

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/168 (24%), Positives = 86/168 (51%), Gaps = 10/168 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ LLGD  +GK+S + ++V D  +   SP  G + M KT+        + IW+  G  
Sbjct: 6   LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 65

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFD--DF 200
           +     P+  + S A + ++D+T + +  ++ +W ++ ++   +  +  I G K D  D 
Sbjct: 66  RFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI 125

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            ++P+         A+ YA+++ A +  +SA   IN+ ++ + I+ ++
Sbjct: 126 REVPL-------KDAKEYAESIGAIVVETSAKNAINIEELFQGISRQI 166

Homo sapiens (taxid: 9606)

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	268
357471237	276	Septum-promoting GTP-binding protein [Me	0.973	0.945	0.669	8e-95
225447296	290	PREDICTED: septum-promoting GTP-binding	0.955	0.882	0.617	2e-92
297739292	1255	unnamed protein product [Vitis vinifera]	0.955	0.203	0.617	3e-92
356542832	278	PREDICTED: septum-promoting GTP-binding	0.977	0.942	0.654	4e-91
356517632	279	PREDICTED: septum-promoting GTP-binding	0.973	0.935	0.664	4e-91
30686351	292	Ras-related small GTP-binding family pro	0.944	0.866	0.642	1e-90
224117478	278	predicted protein [Populus trichocarpa]	0.962	0.928	0.628	3e-90
224126377	279	predicted protein [Populus trichocarpa]	0.966	0.928	0.613	3e-89
18403119	291	Ras-related small GTP-binding family pro	0.940	0.865	0.638	4e-89
224131576	207	predicted protein [Populus trichocarpa]	0.75	0.971	0.767	1e-86

>gi|357471237|ref|XP_003605903.1| Septum-promoting GTP-binding protein [Medicago truncatula] gi|355506958|gb|AES88100.1| Septum-promoting GTP-binding protein [Medicago truncatula]

 Score =  352 bits (904), Expect = 8e-95,   Method: Compositional matrix adjust.
 Identities = 180/269 (66%), Positives = 214/269 (79%), Gaps = 8/269 (2%)

Query: 4   FNLKRRIERGVLILRRCISCFWEKLLMCSVGKP---IRYRML-PRSTVTSPSPSVLESGL 59
           F L+RR+   V +LRRCI     +LL+CS  +P     Y ML P S + SP  S+L+S +
Sbjct: 12  FALRRRLHSRVSLLRRCILRALHRLLVCSGKQPGANATYSMLTPHSALPSPRASLLDSTV 71

Query: 60  VPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLN 119
              T ++P + +++  LD D LV+LKISLLGDC IGKTSFL KYVG+EKEQG    +G N
Sbjct: 72  --ETAIQPPVFNTN-ELDTD-LVSLKISLLGDCQIGKTSFLVKYVGNEKEQGVEQRKGPN 127

Query: 120 MMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQ 179
            MDKTL+V GARISY IWEV GD K++D LP+ACKDS+AIL MFDLTSRCTL SV+ WY+
Sbjct: 128 QMDKTLVVSGARISYCIWEVQGDGKSEDQLPMACKDSVAILIMFDLTSRCTLNSVLGWYK 187

Query: 180 QARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK 239
           +ARK NQTAIP++IGTKFDDFIQLPID+QWTIAS+AR YAKALNATLFFSSATYNINVNK
Sbjct: 188 EARKWNQTAIPVLIGTKFDDFIQLPIDMQWTIASEARTYAKALNATLFFSSATYNINVNK 247

Query: 240 ILKFITAKLFDIPWTLERNLTIGEPIIDF 268
           I KFITAKLFD+PWT+ERNL +GEPIIDF
Sbjct: 248 IFKFITAKLFDLPWTVERNLNVGEPIIDF 276

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225447296|ref|XP_002279761.1| PREDICTED: septum-promoting GTP-binding protein 1-like [Vitis vinifera]

 Score =  344 bits (882), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 176/285 (61%), Positives = 205/285 (71%), Gaps = 29/285 (10%)

Query: 6   LKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTV 65
           L+RR+   V +L RC+   W++ L+ S  K I+Y+ L R+T  +  P       VP  T 
Sbjct: 13  LRRRLLCRVSLLGRCLMRLWDRFLLISRPKSIKYKQLLRATTFAAKP-------VPSATT 65

Query: 66  RPSLCHSH---------------------RHLDAD-NLVALKISLLGDCHIGKTSFLEKY 103
                                        R  D D +LVALKISLLGDC IGKTSF+ KY
Sbjct: 66  PAFPPPPPPPPPLPPPALQSSGEAGFARCRERDKDSDLVALKISLLGDCQIGKTSFVIKY 125

Query: 104 VGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF 163
           VG+EKEQG     G+N+MDKTL V GARISYSIWEV GD KA +H+P+ACKDS+AIL+MF
Sbjct: 126 VGNEKEQGDIQTSGINLMDKTLYVGGARISYSIWEVGGDEKAHNHIPMACKDSVAILYMF 185

Query: 164 DLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN 223
           DLTSRCTL SVI WY QARK NQ AIP++IGTKFDDFIQLPIDLQWT+ASQARAYAKALN
Sbjct: 186 DLTSRCTLNSVISWYHQARKWNQNAIPVLIGTKFDDFIQLPIDLQWTVASQARAYAKALN 245

Query: 224 ATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGEPIIDF 268
           ATLFFSSATYNINVNKI KFITAKLF++PWT+ERNLT+GEP+IDF
Sbjct: 246 ATLFFSSATYNINVNKIFKFITAKLFNLPWTVERNLTVGEPMIDF 290

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297739292|emb|CBI28943.3| unnamed protein product [Vitis vinifera]

 Score =  344 bits (882), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 176/285 (61%), Positives = 205/285 (71%), Gaps = 29/285 (10%)

Query: 6    LKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTV 65
            L+RR+   V +L RC+   W++ L+ S  K I+Y+ L R+T  +  P       VP  T 
Sbjct: 978  LRRRLLCRVSLLGRCLMRLWDRFLLISRPKSIKYKQLLRATTFAAKP-------VPSATT 1030

Query: 66   RPSLCHSH---------------------RHLDAD-NLVALKISLLGDCHIGKTSFLEKY 103
                                         R  D D +LVALKISLLGDC IGKTSF+ KY
Sbjct: 1031 PAFPPPPPPPPPLPPPALQSSGEAGFARCRERDKDSDLVALKISLLGDCQIGKTSFVIKY 1090

Query: 104  VGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF 163
            VG+EKEQG     G+N+MDKTL V GARISYSIWEV GD KA +H+P+ACKDS+AIL+MF
Sbjct: 1091 VGNEKEQGDIQTSGINLMDKTLYVGGARISYSIWEVGGDEKAHNHIPMACKDSVAILYMF 1150

Query: 164  DLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN 223
            DLTSRCTL SVI WY QARK NQ AIP++IGTKFDDFIQLPIDLQWT+ASQARAYAKALN
Sbjct: 1151 DLTSRCTLNSVISWYHQARKWNQNAIPVLIGTKFDDFIQLPIDLQWTVASQARAYAKALN 1210

Query: 224  ATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGEPIIDF 268
            ATLFFSSATYNINVNKI KFITAKLF++PWT+ERNLT+GEP+IDF
Sbjct: 1211 ATLFFSSATYNINVNKIFKFITAKLFNLPWTVERNLTVGEPMIDF 1255

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356542832|ref|XP_003539869.1| PREDICTED: septum-promoting GTP-binding protein 1-like [Glycine max]

 Score =  340 bits (872), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 174/266 (65%), Positives = 204/266 (76%), Gaps = 4/266 (1%)

Query: 6   LKRRIERGVLILRRCISCFWEKLLMCSVGKPIR--YRMLPRSTVTSPSPSVLESGL-VPG 62
           ++RR    V +L+RC+     ++L+CS  K     Y MLP +  + P P   +  L    
Sbjct: 14  VRRRFHHRVSLLQRCLLRVLHRILLCSGSKATNATYSMLPPALPSPPPPVSSDGELGREE 73

Query: 63  TTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMD 122
             +  S       LD+D LV+LKISLLGDC IGKTSFL KYVGDEKEQ G+  EGLN MD
Sbjct: 74  MDLSSSAVFQTHDLDSD-LVSLKISLLGDCQIGKTSFLAKYVGDEKEQQGNQREGLNQMD 132

Query: 123 KTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR 182
           KTL+V GARISY IWEV GD K++D LP+AC DS+AIL MFDLTSRCTL SV+ WY++AR
Sbjct: 133 KTLVVEGARISYCIWEVQGDGKSEDQLPMACMDSVAILIMFDLTSRCTLNSVVGWYKEAR 192

Query: 183 KCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK 242
           K NQTAIP++IGTKFDDFIQLPIDLQWTIA++AR YAKALNATLFFSSATYNINVNKI K
Sbjct: 193 KWNQTAIPVLIGTKFDDFIQLPIDLQWTIANEARKYAKALNATLFFSSATYNINVNKIFK 252

Query: 243 FITAKLFDIPWTLERNLTIGEPIIDF 268
           FITAKLFD+PWT+ERNLT+GEPIIDF
Sbjct: 253 FITAKLFDLPWTVERNLTVGEPIIDF 278

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356517632|ref|XP_003527491.1| PREDICTED: septum-promoting GTP-binding protein 1-like [Glycine max]

 Score =  340 bits (872), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 178/268 (66%), Positives = 210/268 (78%), Gaps = 7/268 (2%)

Query: 6   LKRRIERGVLILRRCISCFWEKLLMCSVGKPIR--YRMLPRSTVTSPSP--SVLESGLVP 61
           L+RR    V +L+RC+     ++L+CS  KP    Y MLP +  + P P  S  E G   
Sbjct: 14  LRRRFHHRVSLLQRCLLRVLHRILLCSGSKPTNATYSMLPPALPSPPPPMGSDGELGREE 73

Query: 62  GTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNM 120
                 ++ H+H  LD+D LV+LKISLLGDC IGKTSFLEKYVGDEK +Q G+  EGLN 
Sbjct: 74  MDLTSSAVFHTH-DLDSD-LVSLKISLLGDCQIGKTSFLEKYVGDEKDQQQGNQREGLNQ 131

Query: 121 MDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ 180
           MDKTL+V GARISY IWEV GD K++D LP+AC DS+AIL MFDLTSRCTL SV+ WY++
Sbjct: 132 MDKTLVVEGARISYCIWEVQGDGKSEDQLPMACMDSVAILIMFDLTSRCTLNSVVGWYKE 191

Query: 181 ARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI 240
           ARK NQTAIP++IGTKFDDFIQLPIDLQWTIA++AR YAKALNATLFFSSATYNINVNKI
Sbjct: 192 ARKWNQTAIPVLIGTKFDDFIQLPIDLQWTIANEARKYAKALNATLFFSSATYNINVNKI 251

Query: 241 LKFITAKLFDIPWTLERNLTIGEPIIDF 268
            KF+TAKLFD+PWT+ERNLT+GEPIIDF
Sbjct: 252 FKFVTAKLFDLPWTVERNLTVGEPIIDF 279

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30686351|ref|NP_850622.1| Ras-related small GTP-binding family protein [Arabidopsis thaliana] gi|11994637|dbj|BAB02832.1| unnamed protein product [Arabidopsis thaliana] gi|22316556|emb|CAD44270.1| monomeric G-protein [Arabidopsis thaliana] gi|332643018|gb|AEE76539.1| Ras-related small GTP-binding family protein [Arabidopsis thaliana]

 Score =  338 bits (867), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 174/271 (64%), Positives = 205/271 (75%), Gaps = 18/271 (6%)

Query: 15  LILRRCISCFWEKLLMCSVGKPIRY----RMLPRSTVTSPSPSVLES------------G 58
           LILRR     W +++ C+ GK  RY    R LP  TV+ PSPS + +             
Sbjct: 23  LILRRFTRLLWSRIVACTPGKSRRYLLLSRALPSPTVSRPSPSPIPAVDVVVGGGGGGGE 82

Query: 59  LVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEG 117
            V  ++V     +SHR  D+D LV+LKISLLGD  IGKTSFL KYVG+EKE +     +G
Sbjct: 83  FVRRSSVVYDNDNSHRRSDSD-LVSLKISLLGDPEIGKTSFLAKYVGEEKEVEMRELEKG 141

Query: 118 LNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRW 177
           +N  DKTL + GARISYSIWE+ G  +++D +PVACKDS+AILFMFDLTSRCTL SVI W
Sbjct: 142 INCTDKTLYMGGARISYSIWELEGAERSRDQIPVACKDSVAILFMFDLTSRCTLNSVISW 201

Query: 178 YQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV 237
           YQQARK NQTAIP+++GTKFD+FIQLPIDLQWTIASQAR YAKALNATLFFSSA+YNINV
Sbjct: 202 YQQARKSNQTAIPVMVGTKFDEFIQLPIDLQWTIASQARTYAKALNATLFFSSASYNINV 261

Query: 238 NKILKFITAKLFDIPWTLERNLTIGEPIIDF 268
           NKI KF+TAKLFD+PWT+ERNLTIGEPIIDF
Sbjct: 262 NKIFKFVTAKLFDLPWTVERNLTIGEPIIDF 292

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224117478|ref|XP_002317584.1| predicted protein [Populus trichocarpa] gi|222860649|gb|EEE98196.1| predicted protein [Populus trichocarpa]

 Score =  337 bits (864), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 166/264 (62%), Positives = 207/264 (78%), Gaps = 6/264 (2%)

Query: 5   NLKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTT 64
           N+K  I   V + ++     W+++L CS+GKP+RYR L  S   SP P  +E+G+    +
Sbjct: 21  NIKWNILERVTVFKQFFQFIWDRILACSIGKPVRYRRLA-SRPYSPPPEAMEAGV---ES 76

Query: 65  VRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKT 124
           +  + C S  + D+D LV LKISLLGDC IGKTSF+ KYVGDE+E+      GLN+MDKT
Sbjct: 77  LEAASC-SGFNPDSD-LVRLKISLLGDCQIGKTSFMIKYVGDEQEKKCLGMTGLNLMDKT 134

Query: 125 LLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKC 184
           L V+GARIS+SIW+V GD+++ DH+P+ACKD++AILFMFDLTSRCTL SV+ WY QARK 
Sbjct: 135 LFVQGARISFSIWDVAGDSRSIDHVPIACKDAVAILFMFDLTSRCTLNSVLEWYSQARKW 194

Query: 185 NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI 244
           NQTAIPI+IGTKFDDF+QLP +LQWTI +QARAYAKA+ ATLFFSSA +NINVNKI KFI
Sbjct: 195 NQTAIPILIGTKFDDFVQLPPNLQWTIVTQARAYAKAMKATLFFSSAKHNINVNKIFKFI 254

Query: 245 TAKLFDIPWTLERNLTIGEPIIDF 268
            AKL ++PWT+ERNLTIGEPIIDF
Sbjct: 255 MAKLLNLPWTVERNLTIGEPIIDF 278

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224126377|ref|XP_002319823.1| predicted protein [Populus trichocarpa] gi|222858199|gb|EEE95746.1| predicted protein [Populus trichocarpa]

 Score =  333 bits (855), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 162/264 (61%), Positives = 206/264 (78%), Gaps = 5/264 (1%)

Query: 5   NLKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTT 64
           ++K  I   V + ++     W+K+L CS+GKP RYR L   +  SP P  +E+G+   T+
Sbjct: 21  SIKWSILERVTVFKQFFHFIWDKILACSIGKPARYRRLTYRSC-SPPPEAIEAGV--ETS 77

Query: 65  VRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKT 124
           +  + C      D+D LV+LKISLLGDC IGKTSF+ KYVGDE+E+      GL++MDKT
Sbjct: 78  LEAASCRGFSK-DSD-LVSLKISLLGDCQIGKTSFVIKYVGDEQEKKCLEMTGLSLMDKT 135

Query: 125 LLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKC 184
           L V+GARIS+SIW+V GD+ + DH+P+ACKD++AILFMFDLTSRCTL +V+ WY QARK 
Sbjct: 136 LFVQGARISFSIWDVAGDSSSLDHVPIACKDAVAILFMFDLTSRCTLNNVVEWYNQARKW 195

Query: 185 NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI 244
           NQTAIPI+IGTKFDDF+QLP +LQWTI +QARAYAKA+ ATLFFSS+ +NINVNKI KFI
Sbjct: 196 NQTAIPILIGTKFDDFVQLPPNLQWTIVTQARAYAKAMKATLFFSSSKHNINVNKIFKFI 255

Query: 245 TAKLFDIPWTLERNLTIGEPIIDF 268
            AKLF++PWT+ERNLT+GEPIIDF
Sbjct: 256 MAKLFNLPWTVERNLTVGEPIIDF 279

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18403119|ref|NP_566690.1| Ras-related small GTP-binding family protein [Arabidopsis thaliana] gi|21592655|gb|AAM64604.1| putative SGP1 monomeric G-protein [Arabidopsis thaliana] gi|332643019|gb|AEE76540.1| Ras-related small GTP-binding family protein [Arabidopsis thaliana]

 Score =  333 bits (854), Expect = 4e-89,   Method: Compositional matrix adjust.
 Identities = 173/271 (63%), Positives = 205/271 (75%), Gaps = 19/271 (7%)

Query: 15  LILRRCISCFWEKLLMCSVGKPIRY----RMLPRSTVTSPSPSVLES------------G 58
           LILRR     W +++ C+ GK  RY    R LP  TV+ PSPS + +             
Sbjct: 23  LILRRFTRLLWSRIVACTPGKSRRYLLLSRALPSPTVSRPSPSPIPAVDVVVGGGGGGGE 82

Query: 59  LVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEG 117
            V  ++V     +SHR  D+D LV+LKISLLGD  IGKTSFL KYVG+EKE +     +G
Sbjct: 83  FVRRSSVVYDNDNSHRRSDSD-LVSLKISLLGDPEIGKTSFLAKYVGEEKEVEMRELEKG 141

Query: 118 LNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRW 177
           +N  DKTL + GARISYSIWE+  + +++D +PVACKDS+AILFMFDLTSRCTL SVI W
Sbjct: 142 INCTDKTLYMGGARISYSIWELEAE-RSRDQIPVACKDSVAILFMFDLTSRCTLNSVISW 200

Query: 178 YQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV 237
           YQQARK NQTAIP+++GTKFD+FIQLPIDLQWTIASQAR YAKALNATLFFSSA+YNINV
Sbjct: 201 YQQARKSNQTAIPVMVGTKFDEFIQLPIDLQWTIASQARTYAKALNATLFFSSASYNINV 260

Query: 238 NKILKFITAKLFDIPWTLERNLTIGEPIIDF 268
           NKI KF+TAKLFD+PWT+ERNLTIGEPIIDF
Sbjct: 261 NKIFKFVTAKLFDLPWTVERNLTIGEPIIDF 291

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224131576|ref|XP_002321122.1| predicted protein [Populus trichocarpa] gi|222861895|gb|EEE99437.1| predicted protein [Populus trichocarpa]

 Score =  325 bits (833), Expect = 1e-86,   Method: Compositional matrix adjust.
 Identities = 155/202 (76%), Positives = 174/202 (86%), Gaps = 1/202 (0%)

Query: 67  PSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLL 126
           P +CH+H   D+D LVALKISLLGDC IGKTSFL KYVG+EK++G     GL +M KTL+
Sbjct: 7   PPICHNHHDNDSD-LVALKISLLGDCQIGKTSFLAKYVGNEKDEGVKHNNGLKLMKKTLM 65

Query: 127 VRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ 186
           V+ ARISYS+WE+ GD   +  +PVACK S+AIL MFDLTSR TL SVIRWYQ+AR+ NQ
Sbjct: 66  VKDARISYSLWELDGDEGLEQQIPVACKGSVAILIMFDLTSRVTLNSVIRWYQEARRWNQ 125

Query: 187 TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITA 246
           TA+P+IIGTKFDDFIQLPIDLQWTIASQARAYAK LNATLFFSSATYNINVNKI KFITA
Sbjct: 126 TAVPVIIGTKFDDFIQLPIDLQWTIASQARAYAKVLNATLFFSSATYNINVNKIFKFITA 185

Query: 247 KLFDIPWTLERNLTIGEPIIDF 268
           KLFD+PWTLERNLTIGEPIIDF
Sbjct: 186 KLFDLPWTLERNLTIGEPIIDF 207

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	268
TAIR|locus:2093019	292	SGP2 [Arabidopsis thaliana (ta	0.981	0.900	0.619	5e-83
TAIR|locus:2160125	288	SGP1 [Arabidopsis thaliana (ta	0.985	0.916	0.555	3.2e-72
POMBASE|SPAC1565.06c	198	spg1 "GTPase Spg1" [Schizosacc	0.705	0.954	0.433	4e-42
ASPGD|ASPL0000066888	314	spgA [Emericella nidulans (tax	0.768	0.656	0.419	8.4e-42
DICTYBASE|DDB_G0291269	203	spg1 "small GTPase" [Dictyoste	0.705	0.931	0.439	2.2e-41
SGD|S000004529	245	TEM1 "GTP-binding protein of t	0.697	0.763	0.363	1.6e-29
UNIPROTKB|Q9UL26	194	RAB22A "Ras-related protein Ra	0.634	0.876	0.277	1.3e-13
UNIPROTKB|F1MHP4	194	RAB22A "Uncharacterized protei	0.597	0.824	0.265	2.1e-13
UNIPROTKB|A5GHL0	194	RAB22A "Uncharacterized protei	0.597	0.824	0.265	2.1e-13
MGI|MGI:105072	194	Rab22a "RAB22A, member RAS onc	0.597	0.824	0.259	4.4e-13

TAIR|locus:2093019 SGP2 [Arabidopsis thaliana (taxid:3702)]

 Score = 832 (297.9 bits), Expect = 5.0e-83, P = 5.0e-83
 Identities = 174/281 (61%), Positives = 205/281 (72%)

Query:     5 NLKRRIERGVLILRRCISCFWEKLLMCSVGKPIRYRMLPRXXXXXXXXXXLESGLVP--- 61
             NL+ R+ R +LILRR     W +++ C+ GK  RY +L R            S +     
Sbjct:    13 NLRNRVNRRILILRRFTRLLWSRIVACTPGKSRRYLLLSRALPSPTVSRPSPSPIPAVDV 72

Query:    62 --------GTTVRPSLC-----HSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEK 108
                     G  VR S       +SHR  D+D LV+LKISLLGD  IGKTSFL KYVG+EK
Sbjct:    73 VVGGGGGGGEFVRRSSVVYDNDNSHRRSDSD-LVSLKISLLGDPEIGKTSFLAKYVGEEK 131

Query:   109 E-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTS 167
             E +     +G+N  DKTL + GARISYSIWE+ G  +++D +PVACKDS+AILFMFDLTS
Sbjct:   132 EVEMRELEKGINCTDKTLYMGGARISYSIWELEGAERSRDQIPVACKDSVAILFMFDLTS 191

Query:   168 RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLF 227
             RCTL SVI WYQQARK NQTAIP+++GTKFD+FIQLPIDLQWTIASQAR YAKALNATLF
Sbjct:   192 RCTLNSVISWYQQARKSNQTAIPVMVGTKFDEFIQLPIDLQWTIASQARTYAKALNATLF 251

Query:   228 FSSATYNINVNKILKFITAKLFDIPWTLERNLTIGEPIIDF 268
             FSSA+YNINVNKI KF+TAKLFD+PWT+ERNLTIGEPIIDF
Sbjct:   252 FSSASYNINVNKIFKFVTAKLFDLPWTVERNLTIGEPIIDF 292

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0090404 "pollen tube tip" evidence=IDA

GO:0015824 "proline transport" evidence=RCA

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2160125 SGP1 [Arabidopsis thaliana (taxid:3702)]

 Score = 730 (262.0 bits), Expect = 3.2e-72, P = 3.2e-72
 Identities = 151/272 (55%), Positives = 190/272 (69%)

Query:     1 MVQFNLKRRIERGVLILRRCISCFWEKLLMCS--VGKPIRYRMLPRXXXXXXXXXXLESG 58
             +V  N K RI   V I        W K++ CS  + KPI YR +            +  G
Sbjct:    19 IVHVNRKWRIIERVSIFGDFFRFLWRKIVSCSSIIEKPILYRRIVHKISSTAGD--IFDG 76

Query:    59 LVPGTTVRPSLCHSHRHLDADN-LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEG 117
                 TT  P++        +D+ LV+LKISLLGDC  GKT+F+ KYVGDE  Q      G
Sbjct:    77 -DDDTTTEPTVSGRRFGSSSDSDLVSLKISLLGDCQTGKTTFVVKYVGDEN-QSFLEMTG 134

Query:   118 LNMMDKTLLVRGARISYSIWEVTGDAK-AQDHLPVACKDSIAILFMFDLTSRCTLKSVIR 176
             LN+MDKT  V+G  IS+SIW+V GD K ++DH+P+ACKD++AILFMFDLTSR TL SV  
Sbjct:   135 LNLMDKTFYVQGVTISFSIWDVGGDEKRSKDHIPIACKDAVAILFMFDLTSRSTLNSVFG 194

Query:   177 WYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNIN 236
             WY QARK N+TAIPI+IGTKFDDF++LP +LQWTI +QARAYAK +NA+LFFSSAT+NIN
Sbjct:   195 WYSQARKWNKTAIPILIGTKFDDFVRLPPNLQWTIVTQARAYAKVMNASLFFSSATHNIN 254

Query:   237 VNKILKFITAKLFDIPWTLERNLTIGEPIIDF 268
             VNKI KFI A+LF++PW ++RNLT+GEPIID+
Sbjct:   255 VNKIFKFILARLFNLPWKIDRNLTLGEPIIDY 286

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=RCA

POMBASE|SPAC1565.06c spg1 "GTPase Spg1" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 446 (162.1 bits), Expect = 4.0e-42, P = 4.0e-42
 Identities = 82/189 (43%), Positives = 127/189 (67%)

Query:    80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
             N V +K+ ++GD  IGKTS +  YV    ++  +   G+N M+KT+ +R   I++SIW++
Sbjct:     7 NNVTIKVGMIGDSSIGKTSLMVTYVQGSFDEESTQTLGVNFMEKTISIRNTEITFSIWDL 66

Query:   140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD 199
              G  +  + LP+ C D++AILFMFDL+ + TL S+  WY+QAR  N+TA+PI+IGTK+D 
Sbjct:    67 GGQREFVNMLPMVCNDAVAILFMFDLSRKSTLNSIKEWYRQARGFNKTAVPILIGTKYDH 126

Query:   200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
             F+  P + Q  I  QAR YAKA+ A+L F S +++INV KI K + AK+FD+  T+    
Sbjct:   127 FMTFPREDQEEITKQARRYAKAMKASLVFCSTSHSINVQKIFKIVLAKVFDLKCTIPEIK 186

Query:   260 TIGEPIIDF 268
              +G+PI+++
Sbjct:   187 NVGDPILEY 195

GO:0003924 "GTPase activity" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0005525 "GTP binding" evidence=IC

GO:0005816 "spindle pole body" evidence=IDA

GO:0031028 "septation initiation signaling cascade" evidence=IGI

GO:0033205 "cell cycle cytokinesis" evidence=IMP

GO:0034613 "cellular protein localization" evidence=IMP

GO:0044732 "mitotic spindle pole body" evidence=IDA

ASPGD|ASPL0000066888 spgA [Emericella nidulans (taxid:162425)]

 Score = 443 (161.0 bits), Expect = 8.4e-42, P = 8.4e-42
 Identities = 88/210 (41%), Positives = 133/210 (63%)

Query:    61 PGTTVRPS--LCHSHRH--LDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE 116
             P T+ RPS  L  + +       N V +K+ ++GD  IGKTS + KYV    ++      
Sbjct:   100 PPTSSRPSSGLSGTQKQPAQTTKNSVVIKVGMVGDAQIGKTSLMVKYVEGSWDEDYIQTL 159

Query:   117 GLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIR 176
             G+N M+KT+ +R   I++SIW++ G  +  + LP+ C D++AILFMFDLT + TL S+  
Sbjct:   160 GVNFMEKTISIRNTEITFSIWDLGGQREFVNMLPLVCNDAVAILFMFDLTRKSTLNSIKE 219

Query:   177 WYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNIN 236
             WY+Q R  N+TAIP ++GTK+D F+  P + Q  I+ QA+ +AKA+ A+L FSS +++IN
Sbjct:   220 WYRQGRGFNKTAIPFLVGTKYDHFVNFPREDQEEISIQAKRFAKAMKASLIFSSTSHSIN 279

Query:   237 VNKILKFITAKLFDIPWTLERNLTIGEPII 266
             V KI K + AK FD+  T+     IGEP++
Sbjct:   280 VQKIFKIVLAKAFDLKCTIPEIENIGEPLL 309

GO:0044732 "mitotic spindle pole body" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0031028 "septation initiation signaling cascade" evidence=IEA

GO:0034613 "cellular protein localization" evidence=IEA

DICTYBASE|DDB_G0291269 spg1 "small GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 439 (159.6 bits), Expect = 2.2e-41, P = 2.2e-41
 Identities = 83/189 (43%), Positives = 126/189 (66%)

Query:    80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
             N V +K+ ++GD  IGKTS + KYV    ++      G+N M+KT+ +RG  I++SIW++
Sbjct:    15 NNVVVKVGMVGDSQIGKTSLMVKYVEGTFDEDYIQTLGVNFMEKTISIRGTEITFSIWDL 74

Query:   140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD 199
              G  +  + LP+ C D++AILFMFDL+ + TL SV  WY+QAR  N+TAIP +IGTKFD 
Sbjct:    75 GGQREFVNMLPLVCNDAVAILFMFDLSRKSTLNSVKEWYRQARGFNKTAIPFLIGTKFDV 134

Query:   200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
             F   PI+ Q  I  QAR +A A+ + L F S +++INV KI K + +K FD+  T+ + +
Sbjct:   135 FATKPIEEQEEITKQARKFASAMKSPLIFCSTSHSINVQKIFKIVISKAFDLNCTIPKVV 194

Query:   260 TIGEPIIDF 268
              +GEP++++
Sbjct:   195 GVGEPLLEY 203

GO:0005813 "centrosome" evidence=IDA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0007096 "regulation of exit from mitosis" evidence=ISS

GO:0006184 "GTP catabolic process" evidence=ISS

GO:0003924 "GTPase activity" evidence=ISS

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

SGD|S000004529 TEM1 "GTP-binding protein of the Ras family involved in M-phase termination" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 327 (120.2 bits), Expect = 1.6e-29, P = 1.6e-29
 Identities = 68/187 (36%), Positives = 111/187 (59%)

Query:    80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
             N V +++ L+GD  +GKTS + KYV +  ++  +   G+N + + + +R   I +SI ++
Sbjct:    17 NQVEVQVGLVGDAQVGKTSLMVKYVQNIYDKEYTQTLGVNFLKRKVSIRSTDIIFSIMDL 76

Query:   140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD 199
              G  +  + LP+A   S  I+F+FDLT   TL S+  WY+QA   N +AIPI++GTK+D 
Sbjct:    77 GGQREFINMLPIATVGSSVIIFLFDLTRPETLSSIKEWYRQAYGLNDSAIPILVGTKYDL 136

Query:   200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
              I L  + Q  I+  +  YA+ +NA L F S   +IN+ KI K   AK+F++  T+    
Sbjct:   137 LIDLDPEYQEQISRTSMKYAQVMNAPLIFCSTAKSINIQKIFKIALAKIFNLTLTIPEIN 196

Query:   260 TIGEPII 266
              IG+P++
Sbjct:   197 EIGDPLL 203

GO:0007067 "mitosis" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0003924 "GTPase activity" evidence=IDA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0005816 "spindle pole body" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0007096 "regulation of exit from mitosis" evidence=TAS

GO:0051301 "cell division" evidence=IEA

UNIPROTKB|Q9UL26 RAB22A "Ras-related protein Rab-22A" [Homo sapiens (taxid:9606)]

 Score = 177 (67.4 bits), Expect = 1.3e-13, P = 1.3e-13
 Identities = 50/180 (27%), Positives = 91/180 (50%)

Query:    84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
             LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW+  G  
Sbjct:     6 LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65

Query:   144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIII-GTKFDDFIQ 202
             + +   P+  + S A + ++D+T   T  ++  W ++ R+     I + I G K D    
Sbjct:    66 RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVKELRQHGPPNIVVAIAGNKCD---- 121

Query:   203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIG 262
               ID++  +   A+ YA +++A    +SA   IN+N++   I+ +   IP T + NL  G
Sbjct:   122 -LIDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRR---IPST-DANLPSG 176

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015629 "actin cytoskeleton" evidence=IEA

GO:0001726 "ruffle" evidence=IEA

GO:0010008 "endosome membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0003924 "GTPase activity" evidence=TAS

GO:0005886 "plasma membrane" evidence=IDA

GO:0007032 "endosome organization" evidence=IEP

GO:0006897 "endocytosis" evidence=IDA

GO:0005769 "early endosome" evidence=IDA

GO:0045335 "phagocytic vesicle" evidence=IDA

GO:0019003 "GDP binding" evidence=IDA

UNIPROTKB|F1MHP4 RAB22A "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 44/166 (26%), Positives = 85/166 (51%)

Query:    84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
             LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW+  G  
Sbjct:     6 LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65

Query:   144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIII-GTKFDDFIQ 202
             + +   P+  + S A + ++D+T   T  ++  W ++ R+     I + I G K D    
Sbjct:    66 RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVKELRQHGPPNIVVAIAGNKCD---- 121

Query:   203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
               ID++  +   A+ YA +++A    +SA   IN+N++   I+ ++
Sbjct:   122 -LIDVREVMERDAKDYADSIHAVFVETSAKNAININELFIEISRRI 166

GO:0015629 "actin cytoskeleton" evidence=IEA

GO:0007032 "endosome organization" evidence=IEA

GO:0006897 "endocytosis" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005769 "early endosome" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|A5GHL0 RAB22A "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 44/166 (26%), Positives = 85/166 (51%)

Query:    84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
             LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW+  G  
Sbjct:     6 LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65

Query:   144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIII-GTKFDDFIQ 202
             + +   P+  + S A + ++D+T   T  ++  W ++ R+     I + I G K D    
Sbjct:    66 RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVKELRQHGPPNIVVAIAGNKCD---- 121

Query:   203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
               ID++  +   A+ YA +++A    +SA   IN+N++   I+ ++
Sbjct:   122 -LIDVREVLERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 166

GO:0015629 "actin cytoskeleton" evidence=IEA

GO:0007032 "endosome organization" evidence=IEA

GO:0006897 "endocytosis" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005769 "early endosome" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

MGI|MGI:105072 Rab22a "RAB22A, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 172 (65.6 bits), Expect = 4.4e-13, P = 4.4e-13
 Identities = 43/166 (25%), Positives = 85/166 (51%)

Query:    84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
             LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW+  G  
Sbjct:     6 LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65

Query:   144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIII-GTKFDDFIQ 202
             + +   P+  + S A + ++D+T   T  ++  W ++ R+    +I + I G K D    
Sbjct:    66 RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCD---- 121

Query:   203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                D++  +   A+ YA +++A    +SA   IN+N++   I+ ++
Sbjct:   122 -LTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 166

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005525 "GTP binding" evidence=IDA

GO:0005768 "endosome" evidence=IEA

GO:0005769 "early endosome" evidence=ISO

GO:0005886 "plasma membrane" evidence=ISO

GO:0006184 "GTP catabolic process" evidence=IDA

GO:0006810 "transport" evidence=IEA

GO:0006897 "endocytosis" evidence=ISO

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0015629 "actin cytoskeleton" evidence=IDA

GO:0016020 "membrane" evidence=IEA

GO:0019003 "GDP binding" evidence=ISO

GO:0031410 "cytoplasmic vesicle" evidence=IEA

GO:0042995 "cell projection" evidence=IEA

GO:0045335 "phagocytic vesicle" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	SGP2	SGP2; GTP binding; Monomeric G protein. Expressed in root epidermal cells that are destined to become atrichoblasts. Also expressed during pollen development and in the pollen tube tip. (292 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	LCR2	LCR2 (Low-molecular-weight cysteine-rich 2); Encodes a member of a family of small,secreted, cy [...] (89 aa)							•		0.567
	AT5G45550	mob1/phocein family protein; mob1/phocein family protein; FUNCTIONS IN- protein binding; INVOLV [...] (215 aa)							•		0.563
	MAP4K1	ATMAP4K ALPHA1; ATP binding / kinase/ protein kinase/ protein serine/threonine kinase/ protein [...] (680 aa)							•		0.563
	FUM1	FUM1 (FUMARASE 1); catalytic/ fumarate hydratase; fumarase (FUM1) (492 aa)							•		0.500
	AT4G19050	ATP binding / protein binding; ATP binding / protein binding; FUNCTIONS IN- protein binding, AT [...] (1201 aa)							•		0.462
	ATPPC4	ATPPC4; phosphoenolpyruvate carboxylase; Encodes one of four Arabidopsis phosphoenolpyruvate ca [...] (1032 aa)							•		0.408

---

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	268
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	1e-102
pfam08477	116	pfam08477, Miro, Miro-like protein	3e-25
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	2e-18
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	7e-17
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	6e-13
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	1e-12
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	1e-11
pfam00071	162	pfam00071, Ras, Ras family	3e-11
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	4e-11
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	8e-11
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	1e-10
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	1e-10
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	2e-10
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	5e-10
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	1e-09
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	2e-09
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	7e-09
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	1e-08
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	4e-08
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	1e-07
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	1e-07
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	1e-07
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	2e-07
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	3e-07
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	3e-07
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	4e-07
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	5e-07
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	5e-07
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	5e-07
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	7e-07
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	8e-07
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	1e-06
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	2e-06
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	2e-06
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	3e-06
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	5e-06
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	6e-06
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	8e-06
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	1e-05
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	3e-05
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	6e-05
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	7e-05
cd04103	158	cd04103, Centaurin_gamma, Centaurin gamma (CENTG)	8e-05
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	1e-04
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	2e-04
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	2e-04
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	3e-04
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	5e-04
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	0.001
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	0.002
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	0.002
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	0.004

>gnl|CDD|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score =  294 bits (754), Expect = e-102
 Identities = 95/182 (52%), Positives = 128/182 (70%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LKI LLGD  IGKTS + KYV  E ++      G+N M+KT+ +RG  I++SIW++ G  
Sbjct: 1   LKIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQR 60

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           +  + LP+ CKD++AILFMFDLT + TL S+  WY+QAR  N+TAIPI++GTK+D F  L
Sbjct: 61  EFINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIPILVGTKYDLFADL 120

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGE 263
           P + Q  I  QAR YAKA+ A L F S +++INV KI KF+ AK+FD+P T+   LT+GE
Sbjct: 121 PPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKFVLAKVFDLPLTIPEILTVGE 180

Query: 264 PI 265
           PI
Sbjct: 181 PI 182

Spg1p. 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 further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 182

>gnl|CDD|219856 pfam08477, Miro, Miro-like protein

 Score = 96.3 bits (240), Expect = 3e-25
 Identities = 37/117 (31%), Positives = 55/117 (47%), Gaps = 5/117 (4%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ ++GD   GK+S L + VG E        +G  +   TL V G     +IW+  G  +
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSV---IRWYQQARKCNQTAIPII-IGTKF 197
            +    +  K + AIL ++DLT R +L  V   I W    RK     IP+I +G K 
Sbjct: 61  LKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLG-GKIPVILVGNKL 116

Mitochondrial Rho proteins (Miro-1, and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), 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. Length = 116

>gnl|CDD|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)

 Score = 79.4 bits (197), Expect = 2e-18
 Identities = 36/167 (21%), Positives = 78/167 (46%), Gaps = 14/167 (8%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI L+GD  +GKTS L ++V ++  +      G++   KT+ V G ++   IW+  G  
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAG-- 58

Query: 144 KAQDHL----PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFD 198
             Q+          + +   + ++D+T+R + +++ +W  + ++        I++G K D
Sbjct: 59  --QERFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSD 116

Query: 199 DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFIT 245
              +  +  +     +A+ +AK      F +SA    NV++  + + 
Sbjct: 117 LEDERQVSTE-----EAQQFAKENGLLFFETSAKTGENVDEAFESLA 158

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 dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. 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. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible. Length = 159

>gnl|CDD|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score = 75.3 bits (186), Expect = 7e-17
 Identities = 40/168 (23%), Positives = 81/168 (48%), Gaps = 12/168 (7%)

Query: 85  KISLLGDCHIGKTSFLEKYVGD---EKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           K+ LLG+  +GKTS + +YV +   EK +  +     +   KT+ + G RI  +IW+  G
Sbjct: 2   KVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQA---SFFQKTVNIGGKRIDLAIWDTAG 58

Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDF 200
             +     P+  +D+   + ++D+T   + + V +W ++ ++     I  +I+G K D  
Sbjct: 59  QERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLE 118

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            Q  +        +A  YAK++ A  F +SA     + ++   +  ++
Sbjct: 119 RQRVVSKS-----EAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 161

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 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. Length = 162

>gnl|CDD|133324 cd04124, RabL2, Rab GTPase-like family 2 (Rab-like2)

 Score = 64.9 bits (158), Expect = 6e-13
 Identities = 41/160 (25%), Positives = 74/160 (46%), Gaps = 10/160 (6%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +KI LLGD  +GK+  +E+++ D  E        L +        G  I    W+  G  
Sbjct: 1   VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQE 60

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQ 202
           + Q         + A + +FD+T + T K++ +WY++ R+  +  IP I++  K      
Sbjct: 61  RFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELRE-YRPEIPCIVVANK------ 113

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK 242
             IDL  ++  +   +A+  N  L++ SA    NV K+ +
Sbjct: 114 --IDLDPSVTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQ 151

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-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. Length = 161

>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 63.7 bits (156), Expect = 1e-12
 Identities = 37/171 (21%), Positives = 82/171 (47%), Gaps = 10/171 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI L+GD  +GK+S L ++   +  +      G++   KT+ V G R+   IW+  G  
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFD--DF 200
           + +       + ++  L ++D+T+R + +++  W ++ R+  +   + +++G K D  + 
Sbjct: 61  RFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQ 120

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
            Q+  +       +A A+A+      F +SA  N NV +  + +  ++   
Sbjct: 121 RQVSRE-------EAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 62.3 bits (151), Expect = 1e-11
 Identities = 48/198 (24%), Positives = 82/198 (41%), Gaps = 14/198 (7%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI +LGD  +GKT+ L + VGDE  +G  P  G     KT+      I   +W+  G  
Sbjct: 6   FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQE 65

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIR-WYQQARKCNQTAIPIII-GTKFDDF- 200
           + +   P   + +  IL ++D T R +   +   W ++ R+     +PI++ G K D F 
Sbjct: 66  EYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFD 125

Query: 201 ---------IQLPIDLQWTIASQARAYAKALNATLFFSSATY--NINVNKILKFITAKLF 249
                     QL  ++   + +      +  N  L  +SA      NVN++ K +  KL 
Sbjct: 126 EQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLL 185

Query: 250 DIPWTLERNLTIGEPIID 267
           +    L     + +    
Sbjct: 186 EEIEKLVLKNELRQLDRL 203

Length = 219

>gnl|CDD|215692 pfam00071, Ras, Ras family

 Score = 59.8 bits (146), Expect = 3e-11
 Identities = 41/163 (25%), Positives = 78/163 (47%), Gaps = 8/163 (4%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD  +GK+S L ++  ++  +   P  G++   KT+ V G  +   IW+  G  +
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPII-IGTKFDDFIQL 203
            +   P+  + +   L ++D+TSR + ++V +W ++  +     +PI+ +G K D   Q 
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQR 120

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITA 246
            +  +     +  A AK L      +SA  N NV +   F   
Sbjct: 121 VVSTE-----EGEALAKELGLPFMETSAKTNENVEEA--FEEL 156

Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices. Length = 162

>gnl|CDD|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score = 59.6 bits (145), Expect = 4e-11
 Identities = 40/168 (23%), Positives = 77/168 (45%), Gaps = 12/168 (7%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+  LGD  +GKTS + +++ D  +       G++ + KT+ V    +   +W+  G  +
Sbjct: 2   KLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQER 61

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQ--QARKCNQTAIPIIIGTKFD--DF 200
            +  +P   +DS   + ++D+T+R +  +  +W    +  + N   I +++G K D  D 
Sbjct: 62  FRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVII-VLVGNKTDLSDK 120

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            Q+  +       +    AK  NA    +SA    NV ++ K I   L
Sbjct: 121 RQVSTE-------EGEKKAKENNAMFIETSAKAGHNVKQLFKKIAQAL 161

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 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. Length = 161

>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score = 58.9 bits (143), Expect = 8e-11
 Identities = 36/158 (22%), Positives = 75/158 (47%), Gaps = 10/158 (6%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LKI L+GD  +GK+S L ++  D  ++  S   G++   KT+ V G ++  +IW+  G  
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK--CNQTAIPIIIGTKFD-DF 200
           + +       + +  ++ ++D+T R T  ++  W  +      N  A+ +++G K D + 
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDKEN 120

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN 238
            ++  +       + + +A+  N     +SA   I V 
Sbjct: 121 REVTRE-------EGQKFARKHNMLFIETSAKTRIGVQ 151

Rab18 subfamily. 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 most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 59.3 bits (143), Expect = 1e-10
 Identities = 43/186 (23%), Positives = 85/186 (45%), Gaps = 11/186 (5%)

Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           ++ KI L+GD  +GK+S L  ++    E   +P  G++   K L V G R+  +IW+  G
Sbjct: 13  LSFKILLIGDSGVGKSSLLVSFISSSVED-LAPTIGVDFKIKQLTVGGKRLKLTIWDTAG 71

Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIR-WYQQAR--KCNQTAIPIIIGTKFD 198
             + +       +++  I+ ++D+T R T  ++   W ++      NQ  + +++G K D
Sbjct: 72  QERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVD 131

Query: 199 DFIQLPIDLQWTIA-SQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLER 257
                  + +  ++  +  A AK         SA    NV +  + +  K+ ++P  LE 
Sbjct: 132 ------RESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVPSLLEE 185

Query: 258 NLTIGE 263
             T  +
Sbjct: 186 GSTAVK 191

Length = 211

>gnl|CDD|206700 cd04127, Rab27A, Rab GTPase family 27a (Rab27a)

 Score = 58.7 bits (142), Expect = 1e-10
 Identities = 45/169 (26%), Positives = 73/169 (43%), Gaps = 19/169 (11%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV----------RGARIS 133
           +K+  LGD  +GKT+FL +Y  ++         G++  +K ++           +  R+ 
Sbjct: 5   IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAFRVH 64

Query: 134 YSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK---CNQTAIP 190
             +W+  G  + +       +D++  L MFDLTS  +  +V  W  Q +    C    I 
Sbjct: 65  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDI- 123

Query: 191 IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK 239
           ++IG K D    LP D +     QAR  A       F +SA    NV K
Sbjct: 124 VLIGNKAD----LP-DQREVSERQARELADKYGIPYFETSAATGQNVEK 167

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 insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. 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. Length = 180

>gnl|CDD|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score = 58.5 bits (141), Expect = 2e-10
 Identities = 44/178 (24%), Positives = 84/178 (47%), Gaps = 8/178 (4%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           L++ ++G   +GKTS +E++  D   +      G++   KT+ +RG +I   IW+  G  
Sbjct: 1   LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQE 60

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           +         + +  I+ ++D+T + T   + +W +   K  ++ A  +++G K D    
Sbjct: 61  RFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD 120

Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKI-LKFITAKLFDIPWTLERN 258
             I  Q     Q   +A+ +    F  +SA  N NV++I LK +   L  +P  + RN
Sbjct: 121 REITRQ-----QGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKMPLDILRN 173

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 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. Length = 202

>gnl|CDD|206657 cd01865, Rab3, Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D

 Score = 56.5 bits (136), Expect = 5e-10
 Identities = 44/169 (26%), Positives = 76/169 (44%), Gaps = 10/169 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ ++G+  +GKTSFL +Y  D          G++   KT+     RI   IW+  G  
Sbjct: 2   FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQE 61

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFDDFIQ 202
           + +       + ++  + M+D+T+  +  +V  W  Q +  +   A  I++G K D    
Sbjct: 62  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCD---- 117

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
              D +   A + R  A  L    F +SA  NINV ++ +    +L DI
Sbjct: 118 -MEDERVVSAERGRQLADQLGFEFFEASAKENINVKQVFE----RLVDI 161

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 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. Length = 165

>gnl|CDD|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score = 55.8 bits (135), Expect = 1e-09
 Identities = 35/121 (28%), Positives = 59/121 (48%), Gaps = 14/121 (11%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD   GKT+F+++++  E E+      G+ +          +I +++W+  G  K
Sbjct: 2   KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEK 61

Query: 145 AQDHLPVACKDSIAI-----LFMFDLTSRCTLKSVIRWYQQA-RKCNQTAIPIII-GTKF 197
                    +D   I     + MFD+TSR T K+V  W++   R C    IPI++ G K 
Sbjct: 62  -----FGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE--NIPIVLCGNKV 114

Query: 198 D 198
           D
Sbjct: 115 D 115

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 bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus. Length = 166

>gnl|CDD|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score = 55.6 bits (134), Expect = 2e-09
 Identities = 39/174 (22%), Positives = 81/174 (46%), Gaps = 7/174 (4%)

Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSI 136
           D D+L   K+ ++GD  +GK+S L ++  +          G++   +T+ + G R+   I
Sbjct: 2   DYDHL--FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQI 59

Query: 137 WEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTK 196
           W+  G  + +       + +  ++ ++D+T+  +  +V RW Q+  +       +++G K
Sbjct: 60  WDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNK 119

Query: 197 FDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
            DD      + +      A  +A  +  +LF +SA  NINV ++   IT  +  
Sbjct: 120 NDD-----PERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLR 168

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 essential for membrane attachment, a key feature of most Rab proteins. Length = 199

>gnl|CDD|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 54.2 bits (130), Expect = 7e-09
 Identities = 39/168 (23%), Positives = 73/168 (43%), Gaps = 4/168 (2%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI L+GD  +GK++ L ++  +E         G+    +TL V G  +   IW+  G  
Sbjct: 13  FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           + +       + ++  L ++D+T R T  +V RW ++ R    + I I++     D    
Sbjct: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNH- 131

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
              L+       +A A+    +   +SA    NV K  + I  +++ I
Sbjct: 132 ---LRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHI 176

Length = 216

>gnl|CDD|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score = 53.0 bits (127), Expect = 1e-08
 Identities = 37/155 (23%), Positives = 69/155 (44%), Gaps = 7/155 (4%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK  L+GD  +GK   L        E       G++    T+L+ G R+   +W+ +G  
Sbjct: 7   LKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQG 66

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQ 202
           +         + +  I+ ++D+T+R +   + RW ++  + +   +P I++G +    + 
Sbjct: 67  RFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDE-HAPGVPKILVGNR----LH 121

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINV 237
           L    Q     QA+AYA+    T F  S   N N+
Sbjct: 122 LAFKRQVA-TEQAQAYAERNGMTFFEVSPLCNFNI 155

The Rab40 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 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. Length = 189

>gnl|CDD|206703 cd04131, Rnd, Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8

 Score = 51.3 bits (123), Expect = 4e-08
 Identities = 45/172 (26%), Positives = 78/172 (45%), Gaps = 13/172 (7%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           KI L+GD   GKT+ L+ +  D   +   P         +  V   RI  S+W+ +G + 
Sbjct: 3   KIVLVGDSQCGKTALLQVFAKDSFPENYVP-TVFENYTASFEVDKQRIELSLWDTSG-SP 60

Query: 145 AQDHL-PVACKDSIAILFMFDLTSRCTLKSVIR-WYQQARKCNQTAIPIIIGTKFD---- 198
             D++ P++  DS A+L  FD++   TL SV++ W  + R+       +++G K D    
Sbjct: 61  YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFCPNTPVLLVGCKSDLRTD 120

Query: 199 --DFIQLPIDLQWTIAS-QARAYAKALNATLFF--SSATYNINVNKILKFIT 245
                +L    Q  ++  Q R  AK + A  +   S+ T   +V  + +  T
Sbjct: 121 LSTLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSENSVRDVFEMAT 172

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. Length = 176

>gnl|CDD|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional

 Score = 50.9 bits (122), Expect = 1e-07
 Identities = 34/126 (26%), Positives = 60/126 (47%), Gaps = 14/126 (11%)

Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
           +  + K+ ++GD   GKT+F+++++  E E+   P  G+ +          +I +  W+ 
Sbjct: 10  DYPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDT 69

Query: 140 TGDAKAQDHLPVACKDSIAI-----LFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII 193
            G  K         +D   I     + MFD+T+R T K+V  W++   R C    IPI++
Sbjct: 70  AGQEKFG-----GLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCEN--IPIVL 122

Query: 194 -GTKFD 198
            G K D
Sbjct: 123 CGNKVD 128

Length = 219

>gnl|CDD|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score = 50.2 bits (120), Expect = 1e-07
 Identities = 34/162 (20%), Positives = 72/162 (44%), Gaps = 2/162 (1%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE-GLNMMDKTLLVRGARISYSIWEVTGD 142
           +K+ +LG   +GKTS +E+YV      G      G   + K ++V    ++  IW+  G 
Sbjct: 1   VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGS 60

Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQ 202
            + +    +  + + A +  +DLT   + +    W ++ +   +     + GTK  D I+
Sbjct: 61  ERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCKIYLCGTKS-DLIE 119

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI 244
               L+       + +A  + A  F +S+    NV+++ + +
Sbjct: 120 QDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKV 161

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 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. Length = 193

>gnl|CDD|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score = 49.9 bits (119), Expect = 1e-07
 Identities = 36/166 (21%), Positives = 76/166 (45%), Gaps = 6/166 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI L+G+  +GKT  + ++       G     G++ M KT+ ++G +I   IW+  G  
Sbjct: 8   FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQE 67

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + + A++  +D+T   + + +  W ++  +  N   I I++G K D   +
Sbjct: 68  RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAER 127

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +  Q     +A  ++ A +     +SA  + NV K+   +  +L
Sbjct: 128 REVSQQ-----RAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL 168

Rab30 subfamily. 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. Length = 169

>gnl|CDD|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score = 50.2 bits (120), Expect = 2e-07
 Identities = 29/117 (24%), Positives = 59/117 (50%), Gaps = 4/117 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGS--PGEGLNMMDKTLLVRGARISYSIWEVTGD 142
           K+ L+GD  +GKT  L ++  D     GS     G+   +K + V G ++   IW+  G 
Sbjct: 2   KVMLVGDSGVGKTCLLVRF-KDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQ 60

Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD 198
            + +       +D+ A+L ++D+T++ +  ++  W  +  +  Q+ + I ++G K D
Sbjct: 61  ERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKAD 117

Rab26 subfamily. 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. Length = 191

>gnl|CDD|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score = 48.7 bits (117), Expect = 3e-07
 Identities = 35/165 (21%), Positives = 75/165 (45%), Gaps = 6/165 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ LLGD  +GK+S + ++V +E  +      G   + +T+ +    + + IW+  G  +
Sbjct: 3   KLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQER 62

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
            +   P+  + + A + ++D+TS  + +    W ++ ++      +  + G K D   + 
Sbjct: 63  YRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLESKR 122

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            +  +     +A+ YA         +SA    NVN++   I  KL
Sbjct: 123 QVSTE-----EAQEYADENGLLFMETSAKTGENVNELFTEIARKL 162

The Rab5-related 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 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. Length = 163

>gnl|CDD|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score = 48.6 bits (116), Expect = 3e-07
 Identities = 32/118 (27%), Positives = 60/118 (50%), Gaps = 7/118 (5%)

Query: 85  KISLLGDCHIGKTSFLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           KI L+GD ++GKT  ++++      E+ QG + G    M  KTL ++G R+   IW+  G
Sbjct: 5   KIILIGDSNVGKTCVVQRFKSGTFSER-QGNTIGVDFTM--KTLEIQGKRVKLQIWDTAG 61

Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPII-IGTKFD 198
             + +       + +   +  +D+T R + +SV  W ++  K   + + ++ IG K D
Sbjct: 62  QERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCD 119

Rab19 subfamily. 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 characterized. 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. Length = 165

>gnl|CDD|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score = 48.6 bits (115), Expect = 4e-07
 Identities = 31/133 (23%), Positives = 61/133 (45%), Gaps = 6/133 (4%)

Query: 117 GLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIR 176
           G++ + KTL +    +   +W+  G  + +  +P   +DS A + ++D+T+R + ++  +
Sbjct: 14  GIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTK 73

Query: 177 WYQQA-RKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNI 235
           W Q    +  +  I  ++G K D       DL+     +    A+  N     +SA    
Sbjct: 74  WIQDILNERGKDVIIALVGNKTD-----LGDLRKVTYEEGMQKAQEYNTMFHETSAKAGH 128

Query: 236 NVNKILKFITAKL 248
           N+  + K I AKL
Sbjct: 129 NIKVLFKKIAAKL 141

Length = 176

>gnl|CDD|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 48.5 bits (115), Expect = 5e-07
 Identities = 40/155 (25%), Positives = 71/155 (45%), Gaps = 11/155 (7%)

Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  KI ++GD   GKT+ L  +  D   +   P    N    +  +   RI  S+W+ +G
Sbjct: 4   VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSG 62

Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIR-WYQQARK-CNQTAIPIIIGTKFD- 198
                +  P++  DS A+L  FD++   TL SV++ W  + ++ C  T + +++G K D 
Sbjct: 63  SPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKM-LLVGCKSDL 121

Query: 199 -----DFIQLPIDLQWTIA-SQARAYAKALNATLF 227
                  ++L    Q  ++  Q    AK + A  +
Sbjct: 122 RTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY 156

Rnd3/RhoE/Rho8 subfamily. 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 junction formation. Rnd3/RhoE is underexpressed in prostate cancer cells both in vitro and in vivo; re-expression of Rnd3/RhoE suppresses cell cycle progression and increases apoptosis, suggesting it may play a role in tumor suppression. 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. Length = 182

>gnl|CDD|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score = 48.2 bits (115), Expect = 5e-07
 Identities = 35/168 (20%), Positives = 80/168 (47%), Gaps = 11/168 (6%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR--GARISYSIWEVTG 141
           +K+ ++G+ ++GK+S ++++V     +      G++ ++K + +R     +   +W+  G
Sbjct: 1   IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAG 60

Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQA-RKCNQTAIP-IIIGTKFDD 199
             +         + + A + +F  T R + +++  W ++   +C    IP +++ TK D 
Sbjct: 61  QEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGD--IPMVLVQTKIDL 118

Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAK 247
             Q  I        +A A AK L   LF +S   + NV ++ +++  K
Sbjct: 119 LDQAVI-----TNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAEK 161

Rab23-like subfamily. 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) signaling 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 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. Length = 162

>gnl|CDD|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score = 48.9 bits (117), Expect = 5e-07
 Identities = 38/119 (31%), Positives = 63/119 (52%), Gaps = 10/119 (8%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD  +GKT+F+++++  E E+   P  G+ +           I +++W+  G  K
Sbjct: 11  KLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEK 70

Query: 145 ---AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPII-IGTKFD 198
               +D   +  K   AI+ MFD+TSR T K+V  W++   R C    IPI+ +G K D
Sbjct: 71  FGGLRDGYYI--KGQCAII-MFDVTSRITYKNVPNWHRDIVRVCEN--IPIVLVGNKVD 124

Length = 215

>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases)

 Score = 47.5 bits (113), Expect = 7e-07
 Identities = 29/163 (17%), Positives = 57/163 (34%), Gaps = 11/163 (6%)

Query: 88  LLGDCHIGKTSFLEKYVGDE-KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ 146
           ++G   +GK+S L   +G E  E    PG   +       +   ++   + +  G  +  
Sbjct: 2   VVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDEFG 61

Query: 147 DHLPVACKDSIA-----ILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFI 201
                     +      IL + D T R + +       +  +     I I++G K D   
Sbjct: 62  GLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIPI-ILVGNKID--- 117

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI 244
            L       +  +    AK L   +F  SA     V+++ + +
Sbjct: 118 LLEEREVEELL-RLEELAKILGVPVFEVSAKTGEGVDELFEKL 159

Ras-like GTPase superfamily. 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 regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions. Length = 161

>gnl|CDD|133315 cd04115, Rab33B_Rab33A, Rab GTPase family 33 includes Rab33A and Rab33B

 Score = 47.8 bits (114), Expect = 8e-07
 Identities = 41/160 (25%), Positives = 80/160 (50%), Gaps = 28/160 (17%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE-----GLNMMDKTLLVRGARISYSIWEV 139
           KI ++GD ++GKT    ++       G  P       G++  ++T+ + G RI   +W+ 
Sbjct: 4   KIIVIGDSNVGKTCLTYRFCA-----GRFPERTEATIGVDFRERTVEIDGERIKVQLWDT 58

Query: 140 TGDAK-AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-----III 193
            G  +  +  +    ++  A++F++D+T+  +  S+  W ++   C Q ++P     I++
Sbjct: 59  AGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEE---CEQHSLPNEVPRILV 115

Query: 194 GTKFD--DFIQLPIDLQWTIASQARAYAKALNATLFFSSA 231
           G K D  + IQ+P DL       A+ +A A +  LF +SA
Sbjct: 116 GNKCDLREQIQVPTDL-------AQRFADAHSMPLFETSA 148

Rab33B/Rab33A subfamily. 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 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. Length = 170

>gnl|CDD|128473 smart00176, RAN, Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

 Score = 47.7 bits (113), Expect = 1e-06
 Identities = 32/115 (27%), Positives = 57/115 (49%), Gaps = 10/115 (8%)

Query: 89  LGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK---A 145
           +GD   GKT+F+++++  E E+      G+ +           I +++W+  G  K    
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFD 198
           +D   +  + +I    MFD+T+R T K+V  W++   R C    IPI++ G K D
Sbjct: 61  RDGYYIQGQCAI---IMFDVTARVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD 110

Ran is involved in the active transport of proteins through nuclear pores. Length = 200

>gnl|CDD|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score = 46.9 bits (112), Expect = 2e-06
 Identities = 43/176 (24%), Positives = 77/176 (43%), Gaps = 27/176 (15%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ +LGD  +GKTS + +YV  +         G + + K + V    ++  IW+  G  
Sbjct: 1   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQE 60

Query: 144 KAQDHLPVA-------CKDSIAILFMFDLTSRCTLKSVIRW----YQQARKCNQTAIP-I 191
           + Q  L VA       C      + ++D+T+  + +S+  W      QA   +    P +
Sbjct: 61  RFQS-LGVAFYRGADCC------VLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFV 113

Query: 192 IIGTKFDDFIQLPIDLQWTIASQARAYAKAL-NATLFFSSATYNINVNKILKFITA 246
           ++G K D   +  +        +A+ + K+  N   F +SA   INV++   F T 
Sbjct: 114 VLGNKIDLEEKRQV-----STKKAQQWCKSKGNIPYFETSAKEAINVDQA--FETI 162

Rab7 subfamily. 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-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. Length = 172

>gnl|CDD|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score = 46.5 bits (110), Expect = 2e-06
 Identities = 35/163 (21%), Positives = 68/163 (41%), Gaps = 6/163 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            ++ L+GD  +GKT  L ++  +E         G++   KT+ V G ++   IW+  G  
Sbjct: 1   FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQE 60

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQ 202
           + Q       + +  I  ++D++S  + + +++W     +     +  I+IG K D    
Sbjct: 61  RYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKAD---- 116

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFIT 245
                +     Q    AK      F +SA  N N+ +    +T
Sbjct: 117 -EEQKRQVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRLT 158

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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 46.9 bits (111), Expect = 3e-06
 Identities = 32/115 (27%), Positives = 57/115 (49%), Gaps = 2/115 (1%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           KI ++GD   GKT+ L  +  D   +   P    N    +  +   RI  ++W+ +G + 
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENYT-ASFEIDKHRIELNMWDTSGSSY 61

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFD 198
             +  P+A  DS A+L  FD++   TL SV+ +W  + ++    A  +++G K D
Sbjct: 62  YDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKLVLVGCKLD 116

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 spermatocytes and early spermatids, with male-germ-cell Rac GTPase-activating protein (MgcRacGAP), where it localizes to the Golgi-derived pro-acrosomal vesicle. 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. Length = 221

>gnl|CDD|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score = 45.9 bits (109), Expect = 5e-06
 Identities = 29/117 (24%), Positives = 61/117 (52%), Gaps = 3/117 (2%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTGDA 143
           ++ ++GD  +GK+S L+++      +   P  G++   + + +  G RI   +W+  G  
Sbjct: 4   RLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQE 63

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP--IIIGTKFD 198
           + +       ++S+ +L +FD+T+R + + V  W ++AR   Q   P  I++G K D
Sbjct: 64  RFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCD 120

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. Length = 211

>gnl|CDD|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score = 45.2 bits (107), Expect = 6e-06
 Identities = 29/120 (24%), Positives = 56/120 (46%), Gaps = 5/120 (4%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ LLGD  +GK+S + +YV ++ +       G+  ++K L V G  ++  IW+  G  
Sbjct: 6   LKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQE 65

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ----ARKCNQTAIP-IIIGTKFD 198
           + +       + S   L  F +    + +++  W ++    A      + P +I+G K D
Sbjct: 66  RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKID 125

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, 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. Length = 170

>gnl|CDD|206659 cd01867, Rab8_Rab10_Rab13_like, Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13)

 Score = 44.6 bits (106), Expect = 8e-06
 Identities = 32/162 (19%), Positives = 72/162 (44%), Gaps = 8/162 (4%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD  +GK+  L ++  D          G++   +T+ + G +I   IW+  G  +
Sbjct: 5   KLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQER 64

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
            +       + ++ I+ ++D+T   + +++  W +   +  ++    +++G K D    +
Sbjct: 65  FRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCD----M 120

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFIT 245
                 +   +  A A+        +SA  NINV +   F+T
Sbjct: 121 EEKRVVSK-EEGEALAREYGIKFLETSAKANINVEEA--FLT 159

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 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. Length = 167

>gnl|CDD|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 44.9 bits (106), Expect = 1e-05
 Identities = 28/116 (24%), Positives = 55/116 (47%), Gaps = 6/116 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ LLGD ++GKTS L +Y+    +   S   G        L +    + SIW+  G  
Sbjct: 1   LKVVLLGDMNVGKTSLLHRYMERRFKDTVSTVGG-----AFYLKQWGPYNISIWDTAGRE 55

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFD 198
           +      + C+ + A++  +D+++  +L+ +  R+       N+  +  ++G K D
Sbjct: 56  QFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLD 111

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-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. Length = 220

>gnl|CDD|133319 cd04119, RJL, Rab GTPase family J-like (RabJ-like)

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 30/182 (16%), Positives = 77/182 (42%), Gaps = 29/182 (15%)

Query: 84  LKISLLGDCHIGKT---------SFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISY 134
           +K+  +G+  +GK+          F+ KY+         P  G++   K + VR   +  
Sbjct: 1   IKVISMGNSGVGKSCIIKRYCEGRFVSKYL---------PTIGIDYGVKKVSVRNKEVRV 51

Query: 135 SIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQT------A 188
           + ++++G  +  +      KD+  +L ++D+T R + +++  W ++ ++           
Sbjct: 52  NFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENI 111

Query: 189 IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
           + ++   K D      +        + R +A++     F +SA     VN++ + + + +
Sbjct: 112 VVVVCANKIDLTKHRAVS-----EDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSI 166

Query: 249 FD 250
            D
Sbjct: 167 VD 168

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. Length = 168

>gnl|CDD|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score = 42.9 bits (101), Expect = 6e-05
 Identities = 37/173 (21%), Positives = 77/173 (44%), Gaps = 10/173 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGA-RISYSIWEVTGD 142
           +KI +LGD   GKTS + ++  +   +      GL+   + + + G+  ++  +W++ G 
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP----IIIGTKFD 198
                 L      + A+  ++D+T+  + +++  W    +K N+ +      +++G K D
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTD 120

Query: 199 DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
               L  + Q T    AR +A+  +    F SA     V    + I A+L  +
Sbjct: 121 ----LEHNRQVTAEKHAR-FAQENDMESIFVSAKTGDRVFLCFQRIAAELLGV 168

Rab28 subfamily. 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 presumably 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 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. Length = 213

>gnl|CDD|206692 cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab18) and 32 (Rab32)

 Score = 42.3 bits (100), Expect = 7e-05
 Identities = 41/195 (21%), Positives = 81/195 (41%), Gaps = 19/195 (9%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARI-SYSIWEVTGD 142
            K+ ++GD  +GKTS +++YV     Q      G++   K +      +    +W++ G 
Sbjct: 1   FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAG- 59

Query: 143 AKAQDH----LPVACKDSIAILFMFDLTSRCTLKSVIRWYQ----QARKCNQTAIP-III 193
              Q+       V  K ++  + +FD+T   T ++V++W      +    N   IP +++
Sbjct: 60  ---QERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLL 116

Query: 194 GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKLFDIP 252
             K D        L      Q   + K      +F +SA  NIN+ + ++F+   +    
Sbjct: 117 ANKCD---LKKERLA-KDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILKND 172

Query: 253 WTLERNLTIGEPIID 267
             L+      + +ID
Sbjct: 173 KGLQSPEPDEDNVID 187

Rab38/Rab32 subfamily. 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. Length = 201

>gnl|CDD|133303 cd04103, Centaurin_gamma, Centaurin gamma (CENTG) GTPase

 Score = 41.7 bits (98), Expect = 8e-05
 Identities = 44/177 (24%), Positives = 77/177 (43%), Gaps = 31/177 (17%)

Query: 84  LKISLLGDCHIGKTSFLEK-----YVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWE 138
           LK+ ++G+   GK++ + +     YV  E  +GG          K +LV G      I +
Sbjct: 1   LKLGIVGNLRSGKSALVHRYLTGSYVQLESPEGGR-------FKKEVLVDGQSHLLLIRD 53

Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIP-IIIGTK 196
             G   AQ           A++F+F L    + ++V R Y Q +   N + IP I++GT+
Sbjct: 54  EGGAPDAQ-----FAGWVDAVIFVFSLEDEASFQTVYRLYHQLSSYRNISEIPLILVGTQ 108

Query: 197 FDDFIQLP----IDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             D I       ID      ++AR     +    ++ + ATY +NV ++ +    K+
Sbjct: 109 --DAISASNPRVID-----DARARQLCADMKRCSYYETCATYGLNVERVFQEAAQKI 158

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. GGAP has been shown to have high GTPase activity due to a direct intramolecular interaction between the N-terminal GTPase domain and the C-terminal ArfGAP domain. In human tissue, AGAP mRNA was detected in skeletal muscle, kidney, placenta, brain, heart, colon, and lung. Reduced expression levels were also observed in the spleen, liver, and small intestine. Length = 158

>gnl|CDD|206715 cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras GTPases

 Score = 42.0 bits (99), Expect = 1e-04
 Identities = 38/173 (21%), Positives = 67/173 (38%), Gaps = 19/173 (10%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGAR---ISYSIWEVT 140
            ++ LLGD  +GK+S    +     E       G +  ++T+ V G     + Y  WE  
Sbjct: 1   YRVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQE 60

Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQT-AIPII-IGTKFD 198
                +D          A + ++ +T R + +       Q R+  Q   IPII +G K  
Sbjct: 61  DGMWLEDSCMQVGD---AYVIVYSVTDRSSFEKASELRIQLRRARQAEDIPIILVGNK-- 115

Query: 199 DFIQLPIDLQWT---IASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                  DL  +      + RA A   +     +SA    NV+++ + I  ++
Sbjct: 116 ------SDLVRSREVSVQEGRACAVVFDCKFIETSAALQHNVDELFEGIVRQV 162

RGK subfamily. 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 Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD. Length = 219

>gnl|CDD|206641 cd00157, Rho, Ras homology family (Rho) of small guanosine triphosphatases (GTPases)

 Score = 41.0 bits (97), Expect = 2e-04
 Identities = 41/178 (23%), Positives = 73/178 (41%), Gaps = 25/178 (14%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL-----NMMDKTLLVRGARISYSIWE 138
           +KI ++GD  +GKT  L  Y          P E +     N     + V G +++  +W+
Sbjct: 1   IKIVVVGDGAVGKTCLLISYT-----TNKFPTEYVPTVFDNYS-ANVTVDGKQVNLGLWD 54

Query: 139 VTGDAKAQDHL-PVACKDSIAILFMFDLTSRCTLKSVIR-WYQQARKCNQTAIPII-IGT 195
             G  +  D L P++   +   L  F + S  + ++V   WY + +      +PII +GT
Sbjct: 55  TAGQ-EEYDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYCPN-VPIILVGT 112

Query: 196 KFD-----DFIQLPIDLQWTI-ASQARAYAKALNATLFFS-SATYNINVNKILKFITA 246
           K D     + ++     Q  I   +    AK + A  +   SA     + ++  F  A
Sbjct: 113 KIDLRDDGNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEV--FDEA 168

Members of the Rho (Ras homology) 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 proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy. Length = 171

>gnl|CDD|206661 cd01869, Rab1_Ypt1, Rab GTPase family 1 includes the yeast homolog Ypt1

 Score = 40.8 bits (96), Expect = 2e-04
 Identities = 32/166 (19%), Positives = 75/166 (45%), Gaps = 6/166 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  +   IW+  G  
Sbjct: 3   FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAGQE 62

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQA-RKCNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   +
Sbjct: 63  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDK 122

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +D      ++A+ +A  L      +SA    NV +    +  ++
Sbjct: 123 KVVD-----YTEAKEFADELGIPFLETSAKNATNVEEAFMTMAREI 163

Rab1/Ypt1 subfamily. 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 the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 40.8 bits (95), Expect = 3e-04
 Identities = 42/162 (25%), Positives = 68/162 (41%), Gaps = 11/162 (6%)

Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           +V  K+ L+GD   GKT+ L+    D   +   P    N     L     R+  S+W+ +
Sbjct: 11  VVRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-ACLETEEQRVELSLWDTS 69

Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARK-CNQTAIPIIIGTKFD 198
           G     +  P+   DS A+L  FD++      S + +W  +    C  T I ++IG K D
Sbjct: 70  GSPYYDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDYCPSTRI-LLIGCKTD 128

Query: 199 ------DFIQLPIDLQWTIA-SQARAYAKALNATLFFSSATY 233
                   ++L    Q  I+  Q  A AK L A  +   + +
Sbjct: 129 LRTDLSTLMELSNQKQAPISYEQGCAMAKQLGAEAYLECSAF 170

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. Length = 232

>gnl|CDD|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 42/179 (23%), Positives = 76/179 (42%), Gaps = 38/179 (21%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           KI L+GD  +GK++ L ++  +E         G+    +T+ + G  I   IW+  G  +
Sbjct: 5   KIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTAGQER 64

Query: 145 AQDHLPVACKDSIAI-----------LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPII- 192
            +           AI           L ++D+T + T ++V RW ++ R    + I I+ 
Sbjct: 65  YR-----------AITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIML 113

Query: 193 IGTKFDDFIQLPIDLQWTIA---SQARAYAKALNATLFFSSATYNINV----NKILKFI 244
           +G K         DL+   A    +A+A+A+    +   +SA    NV     ++L  I
Sbjct: 114 VGNK--------SDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI 164

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-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. Length = 165

>gnl|CDD|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score = 38.3 bits (89), Expect = 0.001
 Identities = 35/156 (22%), Positives = 64/156 (41%), Gaps = 10/156 (6%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE-GLNMMDKTLLVRGARISYSIWEVTGDA 143
           K  ++GD  +GK+  L ++  ++K     P   G+    + + V G +I   IW+  G  
Sbjct: 4   KYIIIGDMGVGKSCLLHQFT-EKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQE 62

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + +   L ++D+T R T   +  W   AR   N   +  +IG K D    
Sbjct: 63  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKAD---- 118

Query: 203 LPIDLQWTIA-SQARAYAKALNATLFFSSATYNINV 237
             ++ Q  +   +A+ +A          SA    NV
Sbjct: 119 --LEAQRDVTYEEAKQFADENGLLFLECSAKTGENV 152

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 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. Length = 166

>gnl|CDD|206704 cd04132, Rho4_like, Ras homology family 4 (Rho4) of small guanosine triphosphatases (GTPases)-like

 Score = 38.1 bits (89), Expect = 0.002
 Identities = 43/176 (24%), Positives = 73/176 (41%), Gaps = 23/176 (13%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL-----NMMDKTLLVRGARISYSIWE 138
           +KI ++GD   GKT  L  Y      QG  P E +     N +    +  G  I  ++W+
Sbjct: 4   VKIVVVGDGGCGKTCLLMVYA-----QGSFPEEYVPTVFENYVTTLQVPNGKIIELALWD 58

Query: 139 VTGDAKAQDHL-PVACKDSIAILFMFDLTSRCTLKSV-IRWYQQARK-CNQTAIPIIIGT 195
             G  +  D L P++  D   IL  + + +  +L +V  +WY +    C  T I +++G 
Sbjct: 59  TAGQ-EDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVNHFCPGTPI-VLVGL 116

Query: 196 KFD-------DFIQLPIDLQWTIASQARAYAKALNATLF-FSSATYNINVNKILKF 243
           K D               L+     Q  + AK++ A  +   SA    NV+++   
Sbjct: 117 KTDLRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVFDA 172

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. Length = 197

>gnl|CDD|206693 cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab34) and 36 (Rab36)

 Score = 37.5 bits (87), Expect = 0.002
 Identities = 28/116 (24%), Positives = 56/116 (48%), Gaps = 2/116 (1%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ ++GD  +GKT  + ++  D  ++      G++   +   V G   S  +W+  G  +
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFD 198
            +       + + AI+ +FDLT   +L+   +W + A K N   + +  ++GTK D
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKD 117

Rab34/Rab36 subfamily. 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 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. Length = 170

>gnl|CDD|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score = 36.6 bits (85), Expect = 0.004
 Identities = 26/116 (22%), Positives = 52/116 (44%), Gaps = 1/116 (0%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++G    GK+  L +++ ++ +Q  +   G+    + + V G  +   IW+  G  
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQE 60

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPII-IGTKFD 198
           + +       + +   L ++D+TSR +  ++  W   AR      I II +G K D
Sbjct: 61  RFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKD 116

Rab4 subfamily. 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 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. Length = 161

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	268
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	100.0
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
KOG1673	205	consensus Ras GTPases [General function prediction	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
PLN03108	210	Rab family protein; Provisional	100.0
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	100.0
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
PLN03118	211	Rab family protein; Provisional	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	100.0
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	100.0
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	100.0
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.98
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.98
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.98
KOG0395	196	consensus Ras-related GTPase [General function pre	99.98
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.98
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.98
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.97
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.97
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.97
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.97
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.97
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.97
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.97
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.97
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.97
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.97
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.97
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.97
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.97
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.97
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.97
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.97
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.97
PTZ00133	182	ADP-ribosylation factor; Provisional	99.96
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.96
PLN00023	334	GTP-binding protein; Provisional	99.96
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.96
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.96
PTZ00099	176	rab6; Provisional	99.95
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.95
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.95
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.95
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.95
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.95
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.94
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.93
COG1100	219	GTPase SAR1 and related small G proteins [General	99.93
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.93
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.93
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.93
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.93
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.93
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.93
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.93
PRK12299	335	obgE GTPase CgtA; Reviewed	99.93
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.92
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.92
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.92
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.92
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.91
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.9
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.9
PRK15494	339	era GTPase Era; Provisional	99.9
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.9
PRK12297	424	obgE GTPase CgtA; Reviewed	99.9
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.9
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.9
PRK04213	201	GTP-binding protein; Provisional	99.9
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.89
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.89
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.89
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.89
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.89
PRK12298	390	obgE GTPase CgtA; Reviewed	99.89
PRK03003	472	GTP-binding protein Der; Reviewed	99.89
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.88
PRK12296	500	obgE GTPase CgtA; Reviewed	99.88
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.87
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.87
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.87
cd00881	189	GTP_translation_factor GTP translation factor fami	99.87
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.87
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.87
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.87
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.86
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.86
PRK03003	472	GTP-binding protein Der; Reviewed	99.86
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.86
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.86
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.86
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.85
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.85
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.85
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.85
PRK11058	426	GTPase HflX; Provisional	99.84
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.84
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.84
PRK00089	292	era GTPase Era; Reviewed	99.83
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.83
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.83
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.82
PRK00093	435	GTP-binding protein Der; Reviewed	99.82
CHL00189	742	infB translation initiation factor 2; Provisional	99.81
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.81
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.81
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.81
PRK05306	787	infB translation initiation factor IF-2; Validated	99.81
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.8
PRK00093	435	GTP-binding protein Der; Reviewed	99.8
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.8
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.79
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.79
PRK05433	600	GTP-binding protein LepA; Provisional	99.79
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.79
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.78
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.78
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.78
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.78
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.77
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.76
PRK10218	607	GTP-binding protein; Provisional	99.75
COG1159	298	Era GTPase [General function prediction only]	99.75
PRK12317	425	elongation factor 1-alpha; Reviewed	99.75
COG2229	187	Predicted GTPase [General function prediction only	99.75
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.74
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.74
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.74
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.73
PRK04004	586	translation initiation factor IF-2; Validated	99.73
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.73
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.73
COG1160	444	Predicted GTPases [General function prediction onl	99.71
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.71
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.71
COG1160	444	Predicted GTPases [General function prediction onl	99.7
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.69
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.69
COG0486	454	ThdF Predicted GTPase [General function prediction	99.69
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.67
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.67
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.67
COG0536	369	Obg Predicted GTPase [General function prediction	99.67
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.66
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.66
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.66
COG0218	200	Predicted GTPase [General function prediction only	99.65
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.65
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.64
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.63
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.63
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.61
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.61
PRK12735	396	elongation factor Tu; Reviewed	99.61
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.61
PRK12736	394	elongation factor Tu; Reviewed	99.6
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.58
PRK13351	687	elongation factor G; Reviewed	99.57
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.54
COG2262	411	HflX GTPases [General function prediction only]	99.54
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.53
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.53
PRK09602	396	translation-associated GTPase; Reviewed	99.53
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.53
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.52
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.52
COG1084	346	Predicted GTPase [General function prediction only	99.52
CHL00071	409	tufA elongation factor Tu	99.52
PLN03126	478	Elongation factor Tu; Provisional	99.51
PLN00043	447	elongation factor 1-alpha; Provisional	99.5
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.5
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.49
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.49
PRK00049	396	elongation factor Tu; Reviewed	99.48
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.45
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.45
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.45
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.45
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.45
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.44
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.44
COG1163	365	DRG Predicted GTPase [General function prediction	99.43
PLN03127	447	Elongation factor Tu; Provisional	99.43
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.42
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.42
PRK14845	1049	translation initiation factor IF-2; Provisional	99.4
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.4
PTZ00141	446	elongation factor 1- alpha; Provisional	99.4
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.38
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.37
KOG0090	238	consensus Signal recognition particle receptor, be	99.36
PRK12740	668	elongation factor G; Reviewed	99.35
KOG1145	683	consensus Mitochondrial translation initiation fac	99.33
PRK12739	691	elongation factor G; Reviewed	99.33
COG3596	296	Predicted GTPase [General function prediction only	99.32
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.31
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.3
PRK13768	253	GTPase; Provisional	99.3
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.28
PRK00007	693	elongation factor G; Reviewed	99.28
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	99.27
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.27
PRK09866	741	hypothetical protein; Provisional	99.26
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.26
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.24
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.23
PTZ00258	390	GTP-binding protein; Provisional	99.17
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.13
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.12
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.12
PRK09601	364	GTP-binding protein YchF; Reviewed	99.11
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.11
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.08
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.07
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.06
PRK07560	731	elongation factor EF-2; Reviewed	99.03
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.0
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.0
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	98.99
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.98
PLN00116	843	translation elongation factor EF-2 subunit; Provis	98.91
PTZ00416	836	elongation factor 2; Provisional	98.91
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.9
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.87
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.86
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	98.85
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	98.85
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.84
KOG0461	522	consensus Selenocysteine-specific elongation facto	98.83
PRK00098	298	GTPase RsgA; Reviewed	98.83
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.82
PRK12289	352	GTPase RsgA; Reviewed	98.81
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	98.81
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.79
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.79
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	98.79
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.79
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	98.77
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.77
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.75
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	98.73
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.72
PRK12288	347	GTPase RsgA; Reviewed	98.72
KOG0410	410	consensus Predicted GTP binding protein [General f	98.71
KOG0082	354	consensus G-protein alpha subunit (small G protein	98.71
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	98.63
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.63
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.63
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.62
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	98.62
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.58
KOG4273	418	consensus Uncharacterized conserved protein [Funct	98.58
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	98.52
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.5
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.49
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	98.49
KOG2486	320	consensus Predicted GTPase [General function predi	98.46
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.45
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.45
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.43
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	98.41
PRK13796	365	GTPase YqeH; Provisional	98.38
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.38
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.36
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.34
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.34
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.29
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.25
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.22
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.22
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	98.21
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.2
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.19
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	98.16
KOG1143	591	consensus Predicted translation elongation factor	98.15
COG1161	322	Predicted GTPases [General function prediction onl	98.15
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.13
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.12
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.09
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.05
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.03
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	97.94
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.91
PRK10416	318	signal recognition particle-docking protein FtsY;	97.89
PRK01889	356	GTPase RsgA; Reviewed	97.89
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.86
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	97.85
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	97.83
KOG0460	449	consensus Mitochondrial translation elongation fac	97.81
PRK12288	347	GTPase RsgA; Reviewed	97.81
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	97.81
cd03112	158	CobW_like The function of this protein family is u	97.8
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.79
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	97.77
PRK13695	174	putative NTPase; Provisional	97.75
KOG0467	887	consensus Translation elongation factor 2/ribosome	97.75
KOG3929	363	consensus Uncharacterized conserved protein [Funct	97.75
COG1162	301	Predicted GTPases [General function prediction onl	97.73
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.73
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	97.7
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.7
PRK13796	365	GTPase YqeH; Provisional	97.7
PRK14974	336	cell division protein FtsY; Provisional	97.67
PRK12289	352	GTPase RsgA; Reviewed	97.64
KOG0466	466	consensus Translation initiation factor 2, gamma s	97.62
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.61
COG1162	301	Predicted GTPases [General function prediction onl	97.59
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.55
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.52
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.49
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.42
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.39
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.36
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.34
PRK00098	298	GTPase RsgA; Reviewed	97.33
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.32
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.28
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	97.25
cd03114	148	ArgK-like The function of this protein family is u	97.22
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.22
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	97.22
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	97.2
cd02036	179	MinD Bacterial cell division requires the formatio	97.16
PRK10867	433	signal recognition particle protein; Provisional	97.16
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.14
KOG0464	753	consensus Elongation factor G [Translation, riboso	97.12
TIGR00959	428	ffh signal recognition particle protein. This mode	97.12
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.07
COG3523	1188	IcmF Type VI protein secretion system component Va	97.01
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	97.01
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.99
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.98
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.98
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.97
KOG0465	721	consensus Mitochondrial elongation factor [Transla	96.97
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	96.96
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.94
COG0523	323	Putative GTPases (G3E family) [General function pr	96.91
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	96.86
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.84
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.79
cd03111	106	CpaE_like This protein family consists of proteins	96.76
PRK11537	318	putative GTP-binding protein YjiA; Provisional	96.71
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.68
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	96.67
PRK08118	167	topology modulation protein; Reviewed	96.63
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.63
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.62
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	96.62
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	96.62
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.59
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	96.53
PRK07261	171	topology modulation protein; Provisional	96.53
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	96.52
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.52
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.51
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.48
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.46
cd03110	179	Fer4_NifH_child This protein family's function is	96.43
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.43
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.37
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.34
KOG2484	435	consensus GTPase [General function prediction only	96.32
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	96.26
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.24
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	96.24
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.16
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.14
PRK06217	183	hypothetical protein; Validated	96.05
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.03
PF00004	132	AAA: ATPase family associated with various cellula	96.03
smart00382	148	AAA ATPases associated with a variety of cellular	96.02
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	96.02
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.91
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	95.9
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.9
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.88
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.87
PLN03025	319	replication factor C subunit; Provisional	95.87
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.85
KOG0099	379	consensus G protein subunit Galphas, small G prote	95.83
PRK01889	356	GTPase RsgA; Reviewed	95.81
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.8
COG4525	259	TauB ABC-type taurine transport system, ATPase com	95.77
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.77
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	95.77
PRK14737	186	gmk guanylate kinase; Provisional	95.76
PRK03839	180	putative kinase; Provisional	95.76
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	95.69
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.68
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	95.66
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.65
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.63
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	95.61
PRK14530	215	adenylate kinase; Provisional	95.6
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	95.57
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.56
COG3638	258	ABC-type phosphate/phosphonate transport system, A	95.55
COG1161	322	Predicted GTPases [General function prediction onl	95.54
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	95.5
PF05729	166	NACHT: NACHT domain	95.5
PRK13949	169	shikimate kinase; Provisional	95.49
PRK08233	182	hypothetical protein; Provisional	95.48
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	95.48
PRK14532	188	adenylate kinase; Provisional	95.46
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.46
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	95.43
PRK14738	206	gmk guanylate kinase; Provisional	95.43
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	95.41
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	95.41
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.38
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.38
PRK02496	184	adk adenylate kinase; Provisional	95.38
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	95.37
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	95.36
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	95.34
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	95.33
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	95.32
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	95.32
cd03269	210	ABC_putative_ATPase This subfamily is involved in	95.31
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	95.3
COG0410	237	LivF ABC-type branched-chain amino acid transport	95.3

>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.6e-45  Score=289.11  Aligned_cols=169  Identities=21%  Similarity=0.372  Sum_probs=158.6

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      ...+.+||+|+|++|||||+|+.||.++.|.+.+..|+|+||..+++.++|+.+++|||||+|||+|+++..+||++||+
T Consensus         5 ~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahG   84 (205)
T KOG0084|consen    5 EYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHG   84 (205)
T ss_pred             ccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCe
Confidence            46778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe-EEEEcCCCCcC
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT-LFFSSATYNIN  236 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~  236 (268)
                      ||+|||+|+.+||+++..|+++++++.... +++|||||+|+.     +.+.+..++++.|+.+++++ |+|+|||++.|
T Consensus        85 ii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~-----~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~N  159 (205)
T KOG0084|consen   85 IIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLT-----EKRVVSTEEAQEFADELGIPIFLETSAKDSTN  159 (205)
T ss_pred             EEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccH-----hheecCHHHHHHHHHhcCCcceeecccCCccC
Confidence            999999999999999999999999997766 558999999972     44556699999999999999 99999999999


Q ss_pred             HHHHHHHHHHHHhcCc
Q 041042          237 VNKILKFITAKLFDIP  252 (268)
Q Consensus       237 i~~~f~~l~~~i~~~~  252 (268)
                      |+++|..|...+....
T Consensus       160 Ve~~F~~la~~lk~~~  175 (205)
T KOG0084|consen  160 VEDAFLTLAKELKQRK  175 (205)
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            9999999999888765

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=9.7e-44  Score=278.10  Aligned_cols=169  Identities=25%  Similarity=0.418  Sum_probs=158.6

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|+.+||||||+.||+.+.|.+...+|+|..|.++++.+++..++|+||||+|||+|.++.++|||+|+++|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi   82 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI   82 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence            34799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhCCCCceE-EEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~i-lvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      +|||+++.+||..++.|+.++.+..+...+| |||||+||.     +.+.+..++++.+|++.|..|||+|||||.||++
T Consensus        83 vvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~-----~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~  157 (200)
T KOG0092|consen   83 VVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLL-----ERREVEFEEAQAYAESQGLLFFETSAKTGENVNE  157 (200)
T ss_pred             EEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhh-----hcccccHHHHHHHHHhcCCEEEEEecccccCHHH
Confidence            9999999999999999999999988766666 999999982     3466779999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccc
Q 041042          240 ILKFITAKLFDIPWT  254 (268)
Q Consensus       240 ~f~~l~~~i~~~~~~  254 (268)
                      +|..|.+.+......
T Consensus       158 if~~Ia~~lp~~~~~  172 (200)
T KOG0092|consen  158 IFQAIAEKLPCSDPQ  172 (200)
T ss_pred             HHHHHHHhccCcccc
Confidence            999999999988744

>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=100.00  E-value=4.8e-43  Score=279.06  Aligned_cols=169  Identities=20%  Similarity=0.381  Sum_probs=159.5

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      +....+||+++|++|||||+|+.+|..+.|...+..|+|+||..+++.+++..+.+++|||+||++|+.+...||++|++
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~g   87 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMG   87 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCe
Confidence            47778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      +++|||+++..||+++..|+..++++.+..++ +|||||+|+.     ..+.+..+.++++|.++|+.|+|||||+|.||
T Consensus        88 i~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~-----~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI  162 (207)
T KOG0078|consen   88 ILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLE-----EKRQVSKERGEALAREYGIKFFETSAKTNFNI  162 (207)
T ss_pred             eEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeecccccc-----ccccccHHHHHHHHHHhCCeEEEccccCCCCH
Confidence            99999999999999999999999999876666 7999999973     34566699999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCc
Q 041042          238 NKILKFITAKLFDIP  252 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~  252 (268)
                      ++.|..|++.+++..
T Consensus       163 ~eaF~~La~~i~~k~  177 (207)
T KOG0078|consen  163 EEAFLSLARDILQKL  177 (207)
T ss_pred             HHHHHHHHHHHHhhc
Confidence            999999999999654

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=2.1e-42  Score=262.08  Aligned_cols=173  Identities=21%  Similarity=0.373  Sum_probs=159.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||++||++|||||||+.+|+.+.|.+....|+|+||..+.+.++|..+++-||||+|||+|+.+.+.||++|.++
T Consensus         8 ~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGi   87 (209)
T KOG0080|consen    8 YDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGI   87 (209)
T ss_pred             cceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCcee
Confidence            55679999999999999999999999999999988999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCC--CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQT--AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~--~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+|||++.+++|.++..|++++..++.+  .+.++||||+|.     +..+.+..+++.+||+++++-|+||||++.+||
T Consensus        88 IlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDk-----es~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V  162 (209)
T KOG0080|consen   88 ILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDK-----ESERVVDREEGLKFARKHRCLFIECSAKTRENV  162 (209)
T ss_pred             EEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccc-----hhcccccHHHHHHHHHhhCcEEEEcchhhhccH
Confidence            9999999999999999999999999643  334699999995     224556699999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCccchhc
Q 041042          238 NKILKFITAKLFDIPWTLER  257 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~~~~~~  257 (268)
                      +..|++++.+|++.+.-.++
T Consensus       163 ~~~FeelveKIi~tp~l~~~  182 (209)
T KOG0080|consen  163 QCCFEELVEKIIETPSLWEE  182 (209)
T ss_pred             HHHHHHHHHHHhcCcchhhc
Confidence            99999999999999866654

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4e-42  Score=269.04  Aligned_cols=168  Identities=23%  Similarity=0.436  Sum_probs=156.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ..+.+|++++|+.+|||||||+||+.+.|...|.+|||+||.++++.+.+.++.||+|||+|||+|+.+.+.|++++.++
T Consensus        19 ~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~va   98 (221)
T KOG0094|consen   19 PLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVA   98 (221)
T ss_pred             cceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEE
Confidence            45569999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCC-Cce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQT-AIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+|||++|..||++..+|++.++..+.. .+. +|||||.||.     +.+.+..+++...|+++++.|+++||+.|.||
T Consensus        99 viVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~-----dkrqvs~eEg~~kAkel~a~f~etsak~g~NV  173 (221)
T KOG0094|consen   99 VIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLS-----DKRQVSIEEGERKAKELNAEFIETSAKAGENV  173 (221)
T ss_pred             EEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEccccccc-----chhhhhHHHHHHHHHHhCcEEEEecccCCCCH
Confidence            9999999999999999999999888654 355 4999999973     34666789999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCc
Q 041042          238 NKILKFITAKLFDIP  252 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~  252 (268)
                      .++|..|...+....
T Consensus       174 k~lFrrIaa~l~~~~  188 (221)
T KOG0094|consen  174 KQLFRRIAAALPGME  188 (221)
T ss_pred             HHHHHHHHHhccCcc
Confidence            999999999888875

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.5e-42  Score=269.30  Aligned_cols=168  Identities=17%  Similarity=0.319  Sum_probs=156.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ..+.+|++++|+.|||||+|+.||+++.|.+.+..|+|++|..+.+.+++++++|++|||+|||.|+++...||++|.++
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~Ga   82 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGA   82 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcce
Confidence            34579999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC-CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |||||+++++||..+..|+.+++++. ++..++|+|||+||.     ..+.+..++++.||+++|..|+|+||++++||+
T Consensus        83 lLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~-----~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VE  157 (216)
T KOG0098|consen   83 LLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLE-----ARREVSKEEGEAFAREHGLIFMETSAKTAENVE  157 (216)
T ss_pred             EEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhh-----ccccccHHHHHHHHHHcCceeehhhhhhhhhHH
Confidence            99999999999999999999999995 566667999999982     445666999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      |+|......+..+-
T Consensus       158 EaF~nta~~Iy~~~  171 (216)
T KOG0098|consen  158 EAFINTAKEIYRKI  171 (216)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998887664

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=4.1e-42  Score=257.15  Aligned_cols=168  Identities=23%  Similarity=0.410  Sum_probs=158.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ..+.+|.+|+|++|||||||+.+|..+.|...|..|+|+|+..+++.++|..++|+||||+|+|+|+.+...||++.+++
T Consensus         5 ~dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv   84 (198)
T KOG0079|consen    5 YDHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGV   84 (198)
T ss_pred             HHHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceE
Confidence            44568999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      ++|||+++.+||.++.+|+++++..++..+-|+||||.|++     +++.+..++++.||...|+.+||+|||.+.|++.
T Consensus        85 ~vVYDVTn~ESF~Nv~rWLeei~~ncdsv~~vLVGNK~d~~-----~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~  159 (198)
T KOG0079|consen   85 IVVYDVTNGESFNNVKRWLEEIRNNCDSVPKVLVGNKNDDP-----ERRVVDTEDARAFALQMGIELFETSAKENENVEA  159 (198)
T ss_pred             EEEEECcchhhhHhHHHHHHHHHhcCccccceecccCCCCc-----cceeeehHHHHHHHHhcCchheehhhhhcccchH
Confidence            99999999999999999999999999877779999999962     4455669999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCc
Q 041042          240 ILKFITAKLFDIP  252 (268)
Q Consensus       240 ~f~~l~~~i~~~~  252 (268)
                      +|..|.+++++..
T Consensus       160 mF~cit~qvl~~k  172 (198)
T KOG0079|consen  160 MFHCITKQVLQAK  172 (198)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988776

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=100.00  E-value=4.1e-41  Score=260.92  Aligned_cols=171  Identities=20%  Similarity=0.339  Sum_probs=156.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|++++|...+..|||.+|..+.+.+++..++++||||+|||+|.++.-.|||+||++
T Consensus         6 K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcC   85 (210)
T KOG0394|consen    6 KRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCC   85 (210)
T ss_pred             cccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceE
Confidence            44569999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC----CCCce-EEEEeCCCCCCCCCc-cchhchHHHHHHHHHHh-CCeEEEEcCC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN----QTAIP-IIIGTKFDDFIQLPI-DLQWTIASQARAYAKAL-NATLFFSSAT  232 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~----~~~~~-ilvgnK~Dl~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~Sa~  232 (268)
                      ++|||+++++||+.+..|.+++..+.    |..-| ||+|||+|+    ++ ..+.+..+.+++||+.. +++|||+|||
T Consensus        86 vlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~----~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK  161 (210)
T KOG0394|consen   86 VLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDV----DGGKSRQVSEKKAQTWCKSKGNIPYFETSAK  161 (210)
T ss_pred             EEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccC----CCCccceeeHHHHHHHHHhcCCceeEEeccc
Confidence            99999999999999999999987763    34445 799999995    44 33666699999999988 5899999999


Q ss_pred             CCcCHHHHHHHHHHHHhcCccc
Q 041042          233 YNINVNKILKFITAKLFDIPWT  254 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~~~~~  254 (268)
                      .+.||+++|..+++.+++.+..
T Consensus       162 ~~~NV~~AFe~ia~~aL~~E~~  183 (210)
T KOG0394|consen  162 EATNVDEAFEEIARRALANEDR  183 (210)
T ss_pred             ccccHHHHHHHHHHHHHhccch
Confidence            9999999999999999998853

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=7.9e-40  Score=259.54  Aligned_cols=171  Identities=22%  Similarity=0.416  Sum_probs=158.9

Q ss_pred             CCCCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCC
Q 041042           77 DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDS  156 (268)
Q Consensus        77 ~~~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a  156 (268)
                      ..+..+.+||+++|+++||||-|+.||..++|..+..+|+|++|.+..+.++++.++.+||||+|||+|+.+...||++|
T Consensus         8 ~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgA   87 (222)
T KOG0087|consen    8 SEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGA   87 (222)
T ss_pred             ccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhccc
Confidence            34578899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCc
Q 041042          157 IAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNI  235 (268)
Q Consensus       157 ~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  235 (268)
                      .++++|||++...+|+++.+|+.+++.+....++ +|||||+||.     ..+.+..++++.+++..+..++|+||..+.
T Consensus        88 vGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~-----~lraV~te~~k~~Ae~~~l~f~EtSAl~~t  162 (222)
T KOG0087|consen   88 VGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLN-----HLRAVPTEDGKAFAEKEGLFFLETSALDAT  162 (222)
T ss_pred             ceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhh-----hccccchhhhHhHHHhcCceEEEecccccc
Confidence            9999999999999999999999999999866666 5999999982     345666999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHhcCc
Q 041042          236 NVNKILKFITAKLFDIP  252 (268)
Q Consensus       236 ~i~~~f~~l~~~i~~~~  252 (268)
                      ||+++|..++..|+..-
T Consensus       163 NVe~aF~~~l~~I~~~v  179 (222)
T KOG0087|consen  163 NVEKAFERVLTEIYKIV  179 (222)
T ss_pred             cHHHHHHHHHHHHHHHH
Confidence            99999999988877653

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=7.9e-39  Score=259.53  Aligned_cols=182  Identities=51%  Similarity=0.853  Sum_probs=162.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|+.|||||||+++|+++.|...+.+|+|.++..+.+.+++..+.+++|||+|+++|..++..+++++|++++||
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~   80 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMF   80 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEE
Confidence            59999999999999999999999999999999999998888999999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKF  243 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~  243 (268)
                      |+++++||+++..|++.+.+..+..+||+||||+||........++...++++++++..++++++|||++|.|++++|++
T Consensus        81 D~t~~~s~~~i~~~~~~~~~~~~~~~pilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~~  160 (182)
T cd04128          81 DLTRKSTLNSIKEWYRQARGFNKTAIPILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKI  160 (182)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999988766667789999999843323233334467888999999999999999999999999999


Q ss_pred             HHHHHhcCccchhcccCCCCCC
Q 041042          244 ITAKLFDIPWTLERNLTIGEPI  265 (268)
Q Consensus       244 l~~~i~~~~~~~~~~~~~~~~i  265 (268)
                      +++.+++.+.....-...++||
T Consensus       161 l~~~l~~~~~~~~~~~~~~~~~  182 (182)
T cd04128         161 VLAKAFDLPLTIPEILTVGEPI  182 (182)
T ss_pred             HHHHHHhcCCChhhhcCCCCCC
Confidence            9999999887777777777765

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

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4.6e-39  Score=240.50  Aligned_cols=171  Identities=24%  Similarity=0.393  Sum_probs=156.8

Q ss_pred             CCCCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCC
Q 041042           77 DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDS  156 (268)
Q Consensus        77 ~~~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a  156 (268)
                      +....+.+|++++|+..||||||+.++.++.|...+..|+|++|..+++.-..+.+++++|||+|+|+|+.+...||++|
T Consensus        15 dqnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRga   94 (193)
T KOG0093|consen   15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGA   94 (193)
T ss_pred             cccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhcc
Confidence            34466678999999999999999999999999999999999999999998888999999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCc
Q 041042          157 IAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNI  235 (268)
Q Consensus       157 ~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  235 (268)
                      +++|++||++|.+||..++.|...|+.++-...+ |+|||||||     ++++.+..+.++.++.++|+.|||+|||.|.
T Consensus        95 mgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDm-----d~eRvis~e~g~~l~~~LGfefFEtSaK~Ni  169 (193)
T KOG0093|consen   95 MGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDM-----DSERVISHERGRQLADQLGFEFFETSAKENI  169 (193)
T ss_pred             ceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCC-----ccceeeeHHHHHHHHHHhChHHhhhcccccc
Confidence            9999999999999999999999999998765544 799999997     2334445999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHhcCc
Q 041042          236 NVNKILKFITAKLFDIP  252 (268)
Q Consensus       236 ~i~~~f~~l~~~i~~~~  252 (268)
                      ||+++|+.++..|.++.
T Consensus       170 nVk~~Fe~lv~~Ic~km  186 (193)
T KOG0093|consen  170 NVKQVFERLVDIICDKM  186 (193)
T ss_pred             cHHHHHHHHHHHHHHHh
Confidence            99999999999988765

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=3.1e-38  Score=257.15  Aligned_cols=167  Identities=20%  Similarity=0.354  Sum_probs=152.5

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|+.|||||||+++|.++.|...+.+|++.++....+.+++..+.+++|||+|+++|..++..|++++|++|
T Consensus         4 ~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~il   83 (189)
T cd04121           4 DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGII   83 (189)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEE
Confidence            34699999999999999999999999998888899999998888899999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      +|||+++++||+++..|++++....++.|+||||||+||.     ..+.+..++++.+++.++++|+||||++|.||+++
T Consensus        84 lVfD~t~~~Sf~~~~~w~~~i~~~~~~~piilVGNK~DL~-----~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~  158 (189)
T cd04121          84 LVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLA-----FKRQVATEQAQAYAERNGMTFFEVSPLCNFNITES  158 (189)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccch-----hccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHH
Confidence            9999999999999999999998887776778999999973     22345588999999999999999999999999999


Q ss_pred             HHHHHHHHhcCc
Q 041042          241 LKFITAKLFDIP  252 (268)
Q Consensus       241 f~~l~~~i~~~~  252 (268)
                      |++|++.+....
T Consensus       159 F~~l~~~i~~~~  170 (189)
T cd04121         159 FTELARIVLMRH  170 (189)
T ss_pred             HHHHHHHHHHhc
Confidence            999999887654

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

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.6e-39  Score=241.85  Aligned_cols=167  Identities=20%  Similarity=0.382  Sum_probs=153.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|..|||||+|+++|..+-|.+....|+|++|+.+++.++|.+++++||||+|||+|+++.+.||+.|+++
T Consensus         4 ykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahal   83 (213)
T KOG0095|consen    4 YKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHAL   83 (213)
T ss_pred             cceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceE
Confidence            55679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||++...||+.+.+|+.+|.++..+.+. |+||||.|+     .+++++..+.+++|++....-|+|+||+..+||+
T Consensus        84 ilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~-----~drrevp~qigeefs~~qdmyfletsakea~nve  158 (213)
T KOG0095|consen   84 ILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDL-----ADRREVPQQIGEEFSEAQDMYFLETSAKEADNVE  158 (213)
T ss_pred             EEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccch-----hhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHH
Confidence            9999999999999999999999999766665 899999997     2445566888999999988888999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      .+|..++..+...
T Consensus       159 ~lf~~~a~rli~~  171 (213)
T KOG0095|consen  159 KLFLDLACRLISE  171 (213)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999988766544

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=5.4e-39  Score=244.23  Aligned_cols=167  Identities=19%  Similarity=0.405  Sum_probs=152.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEE-CCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV-RGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      .+.+++++||++-||||||++.|..++|.+-..||+|+||..+.+.+ +|..++|++|||+|||+|+++.+.||++.-++
T Consensus         6 ~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgv   85 (213)
T KOG0091|consen    6 HYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGV   85 (213)
T ss_pred             EEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccce
Confidence            46799999999999999999999999999999999999999887766 68899999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC--CCCceE-EEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPI-IIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNIN  236 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~i-lvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  236 (268)
                      ++|||++|++||+.+..|+.+...+-  |..+++ |||+|+||.     ..+.+..++++.|++.+|+.|+|+||++|.|
T Consensus        86 llvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~-----SqRqVt~EEaEklAa~hgM~FVETSak~g~N  160 (213)
T KOG0091|consen   86 LLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQ-----SQRQVTAEEAEKLAASHGMAFVETSAKNGCN  160 (213)
T ss_pred             EEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchh-----hhccccHHHHHHHHHhcCceEEEecccCCCc
Confidence            99999999999999999999987773  555664 999999982     4466779999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCc
Q 041042          237 VNKILKFITAKLFDIP  252 (268)
Q Consensus       237 i~~~f~~l~~~i~~~~  252 (268)
                      |++.|..|++.++..-
T Consensus       161 VeEAF~mlaqeIf~~i  176 (213)
T KOG0091|consen  161 VEEAFDMLAQEIFQAI  176 (213)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999887654

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=9.3e-38  Score=251.63  Aligned_cols=167  Identities=19%  Similarity=0.297  Sum_probs=146.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+.+|+.+.|...+.+|++.++ .+.+.+++..+++++|||+|+++|..++..+++++|++|+||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvy   80 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   80 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEE
Confidence            7999999999999999999999999999999998776 466788999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHH-HHHHHHHHHhCCCCceEEEEeCCCCCCCCC-----ccchhchHHHHHHHHHHhCC-eEEEEcCCCCcC
Q 041042          164 DLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFDDFIQLP-----IDLQWTIASQARAYAKALNA-TLFFSSATYNIN  236 (268)
Q Consensus       164 D~~~~~s~~~~-~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~-----~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~  236 (268)
                      |+++++||+++ ..|+..+....++.|+||||||+||..+..     ...+.+..++++++++.+++ .|+||||++|.|
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~n  160 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQN  160 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcccC
Confidence            99999999998 689999988776666689999999732110     01123568899999999998 599999999999


Q ss_pred             HHHHHHHHHHHHhcC
Q 041042          237 VNKILKFITAKLFDI  251 (268)
Q Consensus       237 i~~~f~~l~~~i~~~  251 (268)
                      |+++|+.+++.+.+.
T Consensus       161 V~~~F~~~~~~~~~~  175 (176)
T cd04133         161 VKAVFDAAIKVVLQP  175 (176)
T ss_pred             HHHHHHHHHHHHhcC
Confidence            999999999987543

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,

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=7.8e-38  Score=257.15  Aligned_cols=163  Identities=21%  Similarity=0.412  Sum_probs=147.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +.|+++|+.|||||||+++|..+.|...+.+|+|.++..+.+.+++..+.+++|||+|+++|..++..|++++|++|+||
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVf   80 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVY   80 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEE
Confidence            47999999999999999999999999999999999999899999999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh-CCeEEEEcCCCCcCHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-NATLFFSSATYNINVNKIL  241 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |+++++||+++..|++.+...... .|+||||||+||.     ..+.+..++++++++++ ++.|++|||++|.||+++|
T Consensus        81 Dvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~-----~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F  155 (202)
T cd04120          81 DITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE-----TDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIF  155 (202)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-----cccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHH
Confidence            999999999999999998877544 4447999999972     23445578888999886 8999999999999999999


Q ss_pred             HHHHHHHhcC
Q 041042          242 KFITAKLFDI  251 (268)
Q Consensus       242 ~~l~~~i~~~  251 (268)
                      +++++.+.+.
T Consensus       156 ~~l~~~~~~~  165 (202)
T cd04120         156 LKLVDDILKK  165 (202)
T ss_pred             HHHHHHHHHh
Confidence            9999988654

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=1.2e-37  Score=252.47  Aligned_cols=169  Identities=26%  Similarity=0.318  Sum_probs=148.8

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|..+.|...+.||++.++. +.+.+++..+.+++|||+|+++|..++..+++++|++|
T Consensus         3 ~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~-~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~i   81 (182)
T cd04172           3 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVL   81 (182)
T ss_pred             cceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeE-EEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEE
Confidence            45689999999999999999999999999999999987664 67888999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHHhCCCCceEEEEeCCCCCCCCC------c-cchhchHHHHHHHHHHhCC-eEEEEcC
Q 041042          161 FMFDLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFDDFIQLP------I-DLQWTIASQARAYAKALNA-TLFFSSA  231 (268)
Q Consensus       161 lv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~------~-~~~~~~~~~~~~~~~~~~~-~~~~~Sa  231 (268)
                      +|||+++++||+++ ..|++.+....++.|+||||||+||.....      . ..+.+..++++++|+++++ +|+||||
T Consensus        82 lvyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SA  161 (182)
T cd04172          82 ICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA  161 (182)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECCc
Confidence            99999999999998 799999998887777789999999732110      0 1123568999999999996 8999999


Q ss_pred             CCCcC-HHHHHHHHHHHHhc
Q 041042          232 TYNIN-VNKILKFITAKLFD  250 (268)
Q Consensus       232 ~~~~~-i~~~f~~l~~~i~~  250 (268)
                      ++|.| |+++|+.+++.+++
T Consensus       162 k~~~n~v~~~F~~~~~~~~~  181 (182)
T cd04172         162 LQSENSVRDIFHVATLACVN  181 (182)
T ss_pred             CCCCCCHHHHHHHHHHHHhc
Confidence            99998 99999999987654

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

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.2e-38  Score=239.79  Aligned_cols=168  Identities=18%  Similarity=0.299  Sum_probs=157.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ..+.+|++++|+.|.|||+|+++|+.++|.++...|+|++|.++.+.+.++.++++||||+|||+|++..+.||++|.+.
T Consensus         6 YDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGA   85 (214)
T KOG0086|consen    6 YDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGA   85 (214)
T ss_pred             hhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccccce
Confidence            66789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      ++|||+++++||+.+..|+..++...+..+. |++|||.||     +..+.+...++..||++..+.+.|+||++|+||+
T Consensus        86 lLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL-----~~~R~VtflEAs~FaqEnel~flETSa~TGeNVE  160 (214)
T KOG0086|consen   86 LLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDL-----DPEREVTFLEASRFAQENELMFLETSALTGENVE  160 (214)
T ss_pred             EEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhc-----ChhhhhhHHHHHhhhcccceeeeeecccccccHH
Confidence            9999999999999999999999998776666 599999997     2446667999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      |.|-..++.|+.+-
T Consensus       161 EaFl~c~~tIl~kI  174 (214)
T KOG0086|consen  161 EAFLKCARTILNKI  174 (214)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998888764

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=8.2e-37  Score=255.41  Aligned_cols=171  Identities=23%  Similarity=0.278  Sum_probs=150.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|..+.|...+.||++.++. ..+.+++..+.++||||+|+++|..+...||++||++
T Consensus        10 ~~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~v   88 (232)
T cd04174          10 LVMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAV   88 (232)
T ss_pred             ceeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEE
Confidence            556799999999999999999999999999999999998774 5688899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHH-HHHHHHHHHhCCCCceEEEEeCCCCCCCCC------cc-chhchHHHHHHHHHHhCC-eEEEEc
Q 041042          160 LFMFDLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFDDFIQLP------ID-LQWTIASQARAYAKALNA-TLFFSS  230 (268)
Q Consensus       160 ilv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~------~~-~~~~~~~~~~~~~~~~~~-~~~~~S  230 (268)
                      |+|||+++.+||+.+ ..|++++....+..|+||||||+||.....      .. .+.+..++++++|+++++ .|+|||
T Consensus        89 IlVyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtS  168 (232)
T cd04174          89 LLCFDISRPETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECS  168 (232)
T ss_pred             EEEEECCChHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEcc
Confidence            999999999999985 799999998877766789999999742110      01 234558899999999999 699999


Q ss_pred             CCCCc-CHHHHHHHHHHHHhcC
Q 041042          231 ATYNI-NVNKILKFITAKLFDI  251 (268)
Q Consensus       231 a~~~~-~i~~~f~~l~~~i~~~  251 (268)
                      |++|. ||+++|..++..+.+.
T Consensus       169 Aktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         169 AFTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             CCcCCcCHHHHHHHHHHHHHHh
Confidence            99998 8999999999988765

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.

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=6.3e-37  Score=247.46  Aligned_cols=166  Identities=26%  Similarity=0.322  Sum_probs=146.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++||+++|++|||||||+++|.++.|...+.||++.++. +.+.+++..+.+++|||+|+++|..+...+++++|++|+|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYT-ASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEE-EEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            479999999999999999999999999999999987764 6788899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHH-HHHHHHHHHhCCCCceEEEEeCCCCCCCCC------cc-chhchHHHHHHHHHHhCC-eEEEEcCCC
Q 041042          163 FDLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFDDFIQLP------ID-LQWTIASQARAYAKALNA-TLFFSSATY  233 (268)
Q Consensus       163 ~D~~~~~s~~~~-~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~------~~-~~~~~~~~~~~~~~~~~~-~~~~~Sa~~  233 (268)
                      ||+++++||+++ ..|+..+.+..++.|+||||||+||.....      .. .+.+..+++.++++++++ +|+||||++
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~  159 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFCPNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAFT  159 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHCCCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccCc
Confidence            999999999996 799999998887777789999999732100      01 123558899999999997 899999999


Q ss_pred             CcC-HHHHHHHHHHHHh
Q 041042          234 NIN-VNKILKFITAKLF  249 (268)
Q Consensus       234 ~~~-i~~~f~~l~~~i~  249 (268)
                      |+| |+++|..+++.++
T Consensus       160 ~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         160 SEKSVRDIFHVATMACL  176 (178)
T ss_pred             CCcCHHHHHHHHHHHHh
Confidence            995 9999999998655

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.

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=4e-36  Score=245.55  Aligned_cols=168  Identities=18%  Similarity=0.236  Sum_probs=145.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|+.|||||||+++|..+.|...+.||++.++. +.+.+++..+.+++|||+|+++|..+++.|++++|++|+|
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilv   81 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYS-AQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIIC   81 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeE-EEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEE
Confidence            589999999999999999999999999999999987654 5667899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCc-------cchhchHHHHHHHHHHhC-CeEEEEcCCC
Q 041042          163 FDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPI-------DLQWTIASQARAYAKALN-ATLFFSSATY  233 (268)
Q Consensus       163 ~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~-------~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~  233 (268)
                      ||+++++||+++. .|+..+....++.|+||||||+||.+....       ....+..++++++++.++ ++|+||||++
T Consensus        82 ydit~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk~  161 (191)
T cd01875          82 FSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALN  161 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCCC
Confidence            9999999999997 699888877666666799999997422110       001244678999999998 5999999999


Q ss_pred             CcCHHHHHHHHHHHHhcC
Q 041042          234 NINVNKILKFITAKLFDI  251 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~  251 (268)
                      |.||+++|+++++.+...
T Consensus       162 g~~v~e~f~~l~~~~~~~  179 (191)
T cd01875         162 QDGVKEVFAEAVRAVLNP  179 (191)
T ss_pred             CCCHHHHHHHHHHHHhcc
Confidence            999999999999988764

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

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=1.6e-37  Score=235.11  Aligned_cols=170  Identities=25%  Similarity=0.403  Sum_probs=157.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....||++++|..-||||||+-||+.++|...+.+|+.-.|..+.+.+.+....+.||||+|||+|..+-+.||++.+++
T Consensus        10 ~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGa   89 (218)
T KOG0088|consen   10 KSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGA   89 (218)
T ss_pred             CceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCce
Confidence            44579999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      ++|||++|++||+.++.|..+++....+.+- +|||||+||     ++++.+..+++..+++.-|+.|+++||+.+.||.
T Consensus        90 lLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDL-----EeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~  164 (218)
T KOG0088|consen   90 LLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDL-----EEERQVTRQEAEAYAESVGALYMETSAKDNVGIS  164 (218)
T ss_pred             EEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccH-----HHhhhhhHHHHHHHHHhhchhheecccccccCHH
Confidence            9999999999999999999999998777666 599999997     2456667999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCccc
Q 041042          239 KILKFITAKLFDIPWT  254 (268)
Q Consensus       239 ~~f~~l~~~i~~~~~~  254 (268)
                      ++|+.+...+++....
T Consensus       165 elFe~Lt~~MiE~~s~  180 (218)
T KOG0088|consen  165 ELFESLTAKMIEHSSQ  180 (218)
T ss_pred             HHHHHHHHHHHHHhhh
Confidence            9999999988887533

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=1.9e-35  Score=235.97  Aligned_cols=163  Identities=20%  Similarity=0.347  Sum_probs=146.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||+++|.++.|...+.+|++.++..+.+.+++..+.+++|||+|+++|..++..+++++|++|+|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   81 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   81 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            48999999999999999999999999988999999999888888999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      ||+++++||+.+..|++.+..... +.|++|||||+|+.     ..+....+++.++++..++++++|||++|.|++++|
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f  156 (166)
T cd04122          82 YDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE-----AQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAF  156 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-----cccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHH
Confidence            999999999999999999877654 44557999999972     223345778899999999999999999999999999


Q ss_pred             HHHHHHHhc
Q 041042          242 KFITAKLFD  250 (268)
Q Consensus       242 ~~l~~~i~~  250 (268)
                      .++++.+.+
T Consensus       157 ~~l~~~~~~  165 (166)
T cd04122         157 LETAKKIYQ  165 (166)
T ss_pred             HHHHHHHhh
Confidence            999988765

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=2.5e-35  Score=237.61  Aligned_cols=164  Identities=16%  Similarity=0.241  Sum_probs=142.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|..+.|...+.||++.++. +.+.+++..+.+++|||+|+++|..++..+++++|++|+||
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~   80 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCF   80 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEE
Confidence            79999999999999999999999998899999987764 56778899999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCC------CCc-cchhchHHHHHHHHHHhC-CeEEEEcCCCC
Q 041042          164 DLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQ------LPI-DLQWTIASQARAYAKALN-ATLFFSSATYN  234 (268)
Q Consensus       164 D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~------~~~-~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~  234 (268)
                      |+++++||+++. .|+..+....++.|.||||||+|+...      +.. ..+.+..+++++++++.+ +.|+||||++|
T Consensus        81 d~~~~~s~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg  160 (175)
T cd01874          81 SVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQ  160 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCC
Confidence            999999999997 699999887766666899999997321      000 113445788999999987 68999999999


Q ss_pred             cCHHHHHHHHHHHH
Q 041042          235 INVNKILKFITAKL  248 (268)
Q Consensus       235 ~~i~~~f~~l~~~i  248 (268)
                      .|++++|+.+++.+
T Consensus       161 ~~v~~~f~~~~~~~  174 (175)
T cd01874         161 KGLKNVFDEAILAA  174 (175)
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999998864

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

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2e-37  Score=234.64  Aligned_cols=170  Identities=25%  Similarity=0.375  Sum_probs=151.8

Q ss_pred             CCCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC---------CeEEEEEEEeCCCccccccc
Q 041042           78 ADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR---------GARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        78 ~~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~---------~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      .+..+.+|++.+|++||||||++.++.+++|..+...|+|.||..+.+.++         +..+.+++|||+|||+|+++
T Consensus         4 GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSL   83 (219)
T KOG0081|consen    4 GDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSL   83 (219)
T ss_pred             ccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHH
Confidence            346677899999999999999999999999999999999999999888763         46799999999999999999


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeE
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATL  226 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  226 (268)
                      ...|+++|-+++++||+++..||-+++.|+.+++.+  +.+.-+|++|||+||.     +.+.+..+++.++|.++|+||
T Consensus        84 TTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~-----~~R~Vs~~qa~~La~kyglPY  158 (219)
T KOG0081|consen   84 TTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLE-----DQRVVSEDQAAALADKYGLPY  158 (219)
T ss_pred             HHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchh-----hhhhhhHHHHHHHHHHhCCCe
Confidence            999999999999999999999999999999999876  4444446999999982     344555899999999999999


Q ss_pred             EEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          227 FFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      ||+||-+|.||++..+.++..+++.-
T Consensus       159 fETSA~tg~Nv~kave~LldlvM~Ri  184 (219)
T KOG0081|consen  159 FETSACTGTNVEKAVELLLDLVMKRI  184 (219)
T ss_pred             eeeccccCcCHHHHHHHHHHHHHHHH
Confidence            99999999999999999888877653

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=3.4e-35  Score=244.39  Aligned_cols=169  Identities=24%  Similarity=0.338  Sum_probs=147.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++||+|+|++|||||||+++|..+.|...+.||++.++. ..+.+++..+.|++|||+|++.|..++..+|+++|++|+|
T Consensus         1 ~~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illv   79 (222)
T cd04173           1 RCKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLIC   79 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEE
Confidence            379999999999999999999999999999999987765 6778899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCc------cc-hhchHHHHHHHHHHhCC-eEEEEcCCC
Q 041042          163 FDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPI------DL-QWTIASQARAYAKALNA-TLFFSSATY  233 (268)
Q Consensus       163 ~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~------~~-~~~~~~~~~~~~~~~~~-~~~~~Sa~~  233 (268)
                      ||+++++||+++. .|..++....++.|+||||||+||......      .. ..+..+++..++++.++ +|+||||++
T Consensus        80 fdis~~~Sf~~i~~~w~~~~~~~~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~  159 (222)
T cd04173          80 FDISRPETLDSVLKKWQGETQEFCPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRS  159 (222)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCc
Confidence            9999999999994 788888877777777899999998432110      01 12457899999999996 899999999


Q ss_pred             CcC-HHHHHHHHHHHHhcCc
Q 041042          234 NIN-VNKILKFITAKLFDIP  252 (268)
Q Consensus       234 ~~~-i~~~f~~l~~~i~~~~  252 (268)
                      +.| |+++|+.++..++...
T Consensus       160 ~~~~V~~~F~~~~~~~~~~~  179 (222)
T cd04173         160 SERSVRDVFHVATVASLGRG  179 (222)
T ss_pred             CCcCHHHHHHHHHHHHHhcc
Confidence            985 9999999999887754

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=3.9e-35  Score=244.54  Aligned_cols=165  Identities=23%  Similarity=0.341  Sum_probs=147.7

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||++++..+.|...+.+|+|.++....+..++..+.+.+|||+|+++|..++..|++++|++|
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   90 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAI   90 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEE
Confidence            55799999999999999999999999999999999999998888888888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      +|||+++++||+.+..|+..+.+..++.|++|||||+|+.      .+.+..+++ .+++..+++|++|||++|.||+++
T Consensus        91 lvfD~~~~~s~~~i~~w~~~i~~~~~~~piilvgNK~Dl~------~~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~  163 (219)
T PLN03071         91 IMFDVTARLTYKNVPTWHRDLCRVCENIPIVLCGNKVDVK------NRQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKP  163 (219)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhhh------hccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHH
Confidence            9999999999999999999998887666678999999972      122233444 788888999999999999999999


Q ss_pred             HHHHHHHHhcCc
Q 041042          241 LKFITAKLFDIP  252 (268)
Q Consensus       241 f~~l~~~i~~~~  252 (268)
                      |++|++.+.+..
T Consensus       164 f~~l~~~~~~~~  175 (219)
T PLN03071        164 FLYLARKLAGDP  175 (219)
T ss_pred             HHHHHHHHHcCc
Confidence            999999987653

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=4.9e-35  Score=240.99  Aligned_cols=168  Identities=20%  Similarity=0.338  Sum_probs=148.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC-CeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      +||+++|++|||||||+++|+++.|...+.+|+|.++..+.+.++ +..+.+++|||+|+++|..++..+++++|++|+|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            599999999999999999999999988999999999988888888 8899999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC-----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-CeEEEEcCCCCcC
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN-----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-ATLFFSSATYNIN  236 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~-----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~  236 (268)
                      ||+++++||+.+..|+..+....     ...|.||||||+|+.     ....+..+++.++++..+ +.|++|||++|.|
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~  155 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLK-----KRLAKDGEQMDQFCKENGFIGWFETSAKEGIN  155 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcc-----cccccCHHHHHHHHHHcCCceEEEEeCCCCCC
Confidence            99999999999999999887542     344557999999972     123455788999999999 6899999999999


Q ss_pred             HHHHHHHHHHHHhcCccchh
Q 041042          237 VNKILKFITAKLFDIPWTLE  256 (268)
Q Consensus       237 i~~~f~~l~~~i~~~~~~~~  256 (268)
                      |+++|++|++.+.+......
T Consensus       156 v~e~f~~l~~~l~~~~~~~~  175 (201)
T cd04107         156 IEEAMRFLVKNILANDKNLQ  175 (201)
T ss_pred             HHHHHHHHHHHHHHhchhhH
Confidence            99999999999887764333

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.

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=5.6e-36  Score=222.89  Aligned_cols=173  Identities=19%  Similarity=0.305  Sum_probs=158.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ..+.+|.+++|+-|||||+|+++|...+|..+-..|+|+.|..+.+.+.|++++++||||+|||+|+...+.||++|.+.
T Consensus         8 ysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaaga   87 (215)
T KOG0097|consen    8 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA   87 (215)
T ss_pred             hhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccce
Confidence            55679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHh-CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKC-NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      ++|||++.+.++..+..|+...+.. +++..++++|||.||     +.++.+..+++.+|++++|..|+|+|||+|.||+
T Consensus        88 lmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadl-----e~qrdv~yeeak~faeengl~fle~saktg~nve  162 (215)
T KOG0097|consen   88 LMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADL-----ESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVE  162 (215)
T ss_pred             eEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhh-----hhcccCcHHHHHHHHhhcCeEEEEecccccCcHH
Confidence            9999999999999999999998876 456666799999998     2445667999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCccchhc
Q 041042          239 KILKFITAKLFDIPWTLER  257 (268)
Q Consensus       239 ~~f~~l~~~i~~~~~~~~~  257 (268)
                      +.|-+..+++.++-+...-
T Consensus       163 dafle~akkiyqniqdgsl  181 (215)
T KOG0097|consen  163 DAFLETAKKIYQNIQDGSL  181 (215)
T ss_pred             HHHHHHHHHHHHhhhcCcc
Confidence            9999999998887644433

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=1.4e-37  Score=229.09  Aligned_cols=162  Identities=19%  Similarity=0.345  Sum_probs=148.3

Q ss_pred             EEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeC
Q 041042           87 SLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDL  165 (268)
Q Consensus        87 ~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~  165 (268)
                      +++|++++|||+|+-||.++-| .....+|+|.+|..+.+.++++++++++|||+|||+|++....||++||+.+++||+
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydi   80 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDI   80 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeec
Confidence            3789999999999999998876 456788999999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHHhCCCCceE-EEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHH
Q 041042          166 TSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI  244 (268)
Q Consensus       166 ~~~~s~~~~~~~~~~i~~~~~~~~~i-lvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l  244 (268)
                      +|..||++++.|+.+|.++....+-+ ++|||+|+.     .++.+..++++.+++.+++||+|+|||+|.||+-.|-.|
T Consensus        81 ankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a-----~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~i  155 (192)
T KOG0083|consen   81 ANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLA-----HERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAI  155 (192)
T ss_pred             ccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccc-----hhhccccchHHHHHHHHCCCceeccccccccHhHHHHHH
Confidence            99999999999999999998776664 999999972     224556899999999999999999999999999999999


Q ss_pred             HHHHhcCcc
Q 041042          245 TAKLFDIPW  253 (268)
Q Consensus       245 ~~~i~~~~~  253 (268)
                      ++.+.+..-
T Consensus       156 a~~l~k~~~  164 (192)
T KOG0083|consen  156 AEELKKLKM  164 (192)
T ss_pred             HHHHHHhcc
Confidence            999887753

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=5e-35  Score=235.21  Aligned_cols=164  Identities=13%  Similarity=0.198  Sum_probs=144.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||+++|..+.|...+.+|++..+ .+.+.+++..+.+++|||+|+++|..++..+++++|++|+|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv   80 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC   80 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEE
Confidence            48999999999999999999999999888999998655 45678899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ||+++++||+.+..|+..+.+..  ++.|.||||||+|+.     ..+.+..+++..+++.++++|++|||++|.||+++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~-----~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~  155 (172)
T cd04141          81 YSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLE-----SQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDA  155 (172)
T ss_pred             EECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhh-----hcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHH
Confidence            99999999999999998887653  345557999999972     12334577889999999999999999999999999


Q ss_pred             HHHHHHHHhcCc
Q 041042          241 LKFITAKLFDIP  252 (268)
Q Consensus       241 f~~l~~~i~~~~  252 (268)
                      |++|++.+.+..
T Consensus       156 f~~l~~~~~~~~  167 (172)
T cd04141         156 FHGLVREIRRKE  167 (172)
T ss_pred             HHHHHHHHHHhc
Confidence            999999887643

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

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=6.5e-35  Score=231.96  Aligned_cols=159  Identities=22%  Similarity=0.411  Sum_probs=144.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|.++.|.+.+.+|++.++..+.+.+++..+.+++||++|+++|..++..+++++|++++||
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY   80 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEE
Confidence            58999999999999999999999999889999999988888899999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      |+++++||+.+..|++.+....+...| ++||||.||.     ..+.+..+++..+++..+++|++|||++|.||+++|.
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~  155 (161)
T cd04117          81 DISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEE-----QKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFT  155 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-----cccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999999877654444 7999999972     2234457889999999999999999999999999999


Q ss_pred             HHHHH
Q 041042          243 FITAK  247 (268)
Q Consensus       243 ~l~~~  247 (268)
                      +|++.
T Consensus       156 ~l~~~  160 (161)
T cd04117         156 RLTEL  160 (161)
T ss_pred             HHHhh
Confidence            99865

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=1.3e-34  Score=231.34  Aligned_cols=164  Identities=18%  Similarity=0.354  Sum_probs=147.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +.+||+++|++|||||||+++|.++.|...+.+|++.++..+.+.+++..+.+++|||+|++++..++..+++++|++|+
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~   81 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEE
Confidence            45899999999999999999999999999999999999888888899999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      |||+++.++|+.+..|+..+....... |.+|||||+|+.    + .+....+++..+++.++++++++||++|.|++++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~----~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  156 (167)
T cd01867          82 VYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDME----E-KRVVSKEEGEALADEYGIKFLETSAKANINVEEA  156 (167)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccc----c-ccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999998875444 447999999973    1 2334467788899999999999999999999999


Q ss_pred             HHHHHHHHhc
Q 041042          241 LKFITAKLFD  250 (268)
Q Consensus       241 f~~l~~~i~~  250 (268)
                      |+++++.+..
T Consensus       157 ~~~i~~~~~~  166 (167)
T cd01867         157 FFTLAKDIKK  166 (167)
T ss_pred             HHHHHHHHHh
Confidence            9999998864

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

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=1.3e-34  Score=233.87  Aligned_cols=164  Identities=25%  Similarity=0.401  Sum_probs=144.8

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC----------CeEEEEEEEeCCCccccccchhh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR----------GARISYSIWEVTGDAKAQDHLPV  151 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~----------~~~~~l~i~Dt~G~~~~~~~~~~  151 (268)
                      +.+||+++|++|||||||+++|.++.|...+.+|++.++....+.+.          +..+.+++|||+|+++|..++..
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   82 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTA   82 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHH
Confidence            46999999999999999999999999999999999999887777654          46789999999999999999999


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEE
Q 041042          152 ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFS  229 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  229 (268)
                      +++++|++|+|||+++.+||.++..|+..+....  ++.|++|||||+|+.     ..+.+..+++.++++..+++++++
T Consensus        83 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~  157 (180)
T cd04127          83 FFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLE-----DQRQVSEEQAKALADKYGIPYFET  157 (180)
T ss_pred             HhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccch-----hcCccCHHHHHHHHHHcCCeEEEE
Confidence            9999999999999999999999999999998764  344457999999972     123344678899999999999999


Q ss_pred             cCCCCcCHHHHHHHHHHHHhc
Q 041042          230 SATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      ||++|.|++++|++|++.+++
T Consensus       158 Sak~~~~v~~l~~~l~~~~~~  178 (180)
T cd04127         158 SAATGTNVEKAVERLLDLVMK  178 (180)
T ss_pred             eCCCCCCHHHHHHHHHHHHHh
Confidence            999999999999999988764

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=1.8e-34  Score=231.56  Aligned_cols=165  Identities=21%  Similarity=0.348  Sum_probs=145.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      ||+++|++|||||||+++|.++.|...+.+|++.++..+.+.+++..+.+++|||+|+++|..++..+++++|++++|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   81 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD   81 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEE
Confidence            89999999999999999999999999999999999988888899999999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHh-CCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          165 LTSRCTLKSVIRWYQQARKC-NQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~-~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      +++.++|+.+..|++.+.+. .+..+| ++||||+|+.   +........+++..++++++++|+++||++|.|++++|+
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~---~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~  158 (170)
T cd04108          82 LTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLS---SPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFF  158 (170)
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcC---ccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999998665 344455 6999999972   111112346778888999999999999999999999999


Q ss_pred             HHHHHHhcCc
Q 041042          243 FITAKLFDIP  252 (268)
Q Consensus       243 ~l~~~i~~~~  252 (268)
                      .|++.+.+.+
T Consensus       159 ~l~~~~~~~~  168 (170)
T cd04108         159 RVAALTFELG  168 (170)
T ss_pred             HHHHHHHHcc
Confidence            9999887653

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

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=100.00  E-value=2.7e-35  Score=222.26  Aligned_cols=189  Identities=57%  Similarity=0.960  Sum_probs=184.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      +...+||.++|++.+|||||+-.++++++.+.+..|.|+++..+++.+.|..+.+.+||.+|++++..+.+..+.++-++
T Consensus        17 n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaI   96 (205)
T KOG1673|consen   17 NLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAI   96 (205)
T ss_pred             cceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEE
Confidence            66789999999999999999999999999988999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      +++||++.++++..+..|+.+.+..+...+||+||+|.|+.-.++.+.++.+..+++.+|+-.+++.|+||+..+.||..
T Consensus        97 lFmFDLt~r~TLnSi~~WY~QAr~~NktAiPilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sINv~K  176 (205)
T KOG1673|consen   97 LFMFDLTRRSTLNSIKEWYRQARGLNKTAIPILVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSINVQK  176 (205)
T ss_pred             EEEEecCchHHHHHHHHHHHHHhccCCccceEEeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeeccccccHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccchhcccCCCCCCCCC
Q 041042          240 ILKFITAKLFDIPWTLERNLTIGEPIIDF  268 (268)
Q Consensus       240 ~f~~l~~~i~~~~~~~~~~~~~~~~i~~~  268 (268)
                      +|.-+..++++.+|++++....++||+||
T Consensus       177 IFK~vlAklFnL~~ti~~~~~iGdPildy  205 (205)
T KOG1673|consen  177 IFKIVLAKLFNLPWTIPEILTIGDPILDY  205 (205)
T ss_pred             HHHHHHHHHhCCceecccccccCcccccC
Confidence            99999999999999999999999999998

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=100.00  E-value=1.4e-34  Score=229.75  Aligned_cols=160  Identities=25%  Similarity=0.447  Sum_probs=148.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      ||+++|+++||||||+++|.++.|...+.+|+|.+...+.+.+++..+.+++||++|+++|..+...+++++|++|+|||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd   80 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFD   80 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHH
Q 041042          165 LTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKF  243 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~  243 (268)
                      +++++||+.+..|+..+....+. .|.+|||||.|+.     +.+.+..+++++++++++++|++|||+++.||.++|..
T Consensus        81 ~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~-----~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~  155 (162)
T PF00071_consen   81 VTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLS-----DEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQE  155 (162)
T ss_dssp             TTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGG-----GGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHH
T ss_pred             ccccccccccccccccccccccccccceeeecccccc-----ccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHH
Confidence            99999999999999999999884 4447999999962     23455588999999999999999999999999999999


Q ss_pred             HHHHHh
Q 041042          244 ITAKLF  249 (268)
Q Consensus       244 l~~~i~  249 (268)
                      +++.+.
T Consensus       156 ~i~~i~  161 (162)
T PF00071_consen  156 LIRKIL  161 (162)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            999875

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 ....

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=2.8e-34  Score=229.08  Aligned_cols=162  Identities=24%  Similarity=0.434  Sum_probs=144.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|.+++|...+.+|+|.++....+..++..+.+++|||+|+++|..++..+++++|++++||
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~   81 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEE
Confidence            79999999999999999999999998889999998888778888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      |+++.++|+.+..|+..+....... |++|||||+|+.     +.+....+++.++++.++++++++||++|.|++++|+
T Consensus        82 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  156 (165)
T cd01865          82 DITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDME-----DERVVSSERGRQLADQLGFEFFEASAKENINVKQVFE  156 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccC-----cccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHH
Confidence            9999999999999999998876544 457999999972     1223346777888999999999999999999999999


Q ss_pred             HHHHHHhc
Q 041042          243 FITAKLFD  250 (268)
Q Consensus       243 ~l~~~i~~  250 (268)
                      ++++.+.+
T Consensus       157 ~l~~~~~~  164 (165)
T cd01865         157 RLVDIICD  164 (165)
T ss_pred             HHHHHHHh
Confidence            99987754

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

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=3.2e-34  Score=229.19  Aligned_cols=162  Identities=23%  Similarity=0.344  Sum_probs=144.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||++++..+.+...+.+|++.++....+..++..+.+.+|||+|++.+..++..+++.+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMF   80 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEE
Confidence            59999999999999999999999998889999998888777888888999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKF  243 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~  243 (268)
                      |+++.+||+.+..|+..+.....+.|+++||||+|+.      . +....+..++++..+++++++||++|.|++++|++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~piiiv~nK~Dl~------~-~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~  153 (166)
T cd00877          81 DVTSRVTYKNVPNWHRDLVRVCGNIPIVLCGNKVDIK------D-RKVKAKQITFHRKKNLQYYEISAKSNYNFEKPFLW  153 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhcc------c-ccCCHHHHHHHHHcCCEEEEEeCCCCCChHHHHHH
Confidence            9999999999999999999887766668999999972      1 12223455678888899999999999999999999


Q ss_pred             HHHHHhcCc
Q 041042          244 ITAKLFDIP  252 (268)
Q Consensus       244 l~~~i~~~~  252 (268)
                      |++.+.+.+
T Consensus       154 l~~~~~~~~  162 (166)
T cd00877         154 LARKLLGNP  162 (166)
T ss_pred             HHHHHHhcc
Confidence            999987644

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=5.2e-34  Score=227.48  Aligned_cols=163  Identities=20%  Similarity=0.383  Sum_probs=146.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||++++.++.+...+.+|++.++..+.+.+++..+.+++||++|+++|..++..+++++|++|+|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v   81 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIV   81 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEE
Confidence            48999999999999999999999999888899999999888888999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      ||+++++||+.+..|+..+..... +.|.++||||+|+.     ....+..+++..+++.++++++++||++|.|++++|
T Consensus        82 ~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~  156 (166)
T cd01869          82 YDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT-----DKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAF  156 (166)
T ss_pred             EECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcc-----cccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHH
Confidence            999999999999999999988763 44557999999972     122344678889999999999999999999999999


Q ss_pred             HHHHHHHhc
Q 041042          242 KFITAKLFD  250 (268)
Q Consensus       242 ~~l~~~i~~  250 (268)
                      .+|++.+.+
T Consensus       157 ~~i~~~~~~  165 (166)
T cd01869         157 MTMAREIKK  165 (166)
T ss_pred             HHHHHHHHh
Confidence            999988753

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

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=4.3e-34  Score=233.13  Aligned_cols=168  Identities=22%  Similarity=0.265  Sum_probs=143.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      .||+++|++|||||||+++|.++.|...+.+|++.++. +.+.+++..+.+++|||+|++.|..++..+++++|++|+||
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~   79 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCF   79 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEE
Confidence            38999999999999999999999998889999887764 56677888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCcc-------chhchHHHHHHHHHHhC-CeEEEEcCCCC
Q 041042          164 DLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPID-------LQWTIASQARAYAKALN-ATLFFSSATYN  234 (268)
Q Consensus       164 D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~-------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~  234 (268)
                      |+++++||+.+. .|+..+....++.|+||||||+||.......       ...+..+++..+++..+ +.|++|||++|
T Consensus        80 dv~~~~sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~  159 (189)
T cd04134          80 SVDSPDSLENVESKWLGEIREHCPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLN  159 (189)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcC
Confidence            999999999997 6999998877666678999999974221110       01233667888888887 78999999999


Q ss_pred             cCHHHHHHHHHHHHhcCc
Q 041042          235 INVNKILKFITAKLFDIP  252 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~~~  252 (268)
                      .||+++|++|++.++...
T Consensus       160 ~~v~e~f~~l~~~~~~~~  177 (189)
T cd04134         160 RGVNEAFTEAARVALNVR  177 (189)
T ss_pred             CCHHHHHHHHHHHHhccc
Confidence            999999999999998654

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.

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=3.1e-34  Score=235.41  Aligned_cols=156  Identities=22%  Similarity=0.301  Sum_probs=140.5

Q ss_pred             EcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCCh
Q 041042           89 LGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSR  168 (268)
Q Consensus        89 lG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~  168 (268)
                      +|++|||||||+++|+.+.|...+.+|+|.++..+.+.+++..+.+++|||+|+++|..++..||+++|++|+|||+++.
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            69999999999999999999888999999999988899999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          169 CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       169 ~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .||+.+..|+.++.+..++.|+||||||+||.      .+.+..+. ..+++..++.|++|||++|.||+++|++|++.+
T Consensus        81 ~S~~~i~~w~~~i~~~~~~~piilvgNK~Dl~------~~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i  153 (200)
T smart00176       81 VTYKNVPNWHRDLVRVCENIPIVLCGNKVDVK------DRKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKL  153 (200)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCEEEEEECcccc------cccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            99999999999999887666668999999972      12222333 468888999999999999999999999999988


Q ss_pred             hcC
Q 041042          249 FDI  251 (268)
Q Consensus       249 ~~~  251 (268)
                      .+.
T Consensus       154 ~~~  156 (200)
T smart00176      154 IGD  156 (200)
T ss_pred             Hhc
Confidence            765

Ran is involved in the active transport of proteins through nuclear pores.

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=4e-34  Score=237.95  Aligned_cols=164  Identities=21%  Similarity=0.374  Sum_probs=146.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECC-eEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRG-ARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      +||+++|++|||||||+++|.++.|...+.+|++.++..+.+.+++ ..+.+++|||+|++.+..++..|++++|++|+|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            5999999999999999999999999999999999999888888865 579999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCC---CCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQ---TAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~---~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      ||+++++||+.+..|+..+.+...   ..+| |+||||+||.     ..+.+..+++..+++.++++++++||++|+||+
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~-----~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~  155 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLE-----HNRTVKDDKHARFAQANGMESCLVSAKTGDRVN  155 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccc-----cccccCHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence            999999999999999999988743   2344 6999999972     223455778899999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|+++++.+....
T Consensus       156 ~lf~~l~~~l~~~~  169 (215)
T cd04109         156 LLFQQLAAELLGVD  169 (215)
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999988754

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

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=6.9e-34  Score=233.81  Aligned_cols=166  Identities=22%  Similarity=0.411  Sum_probs=150.0

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|.++.|...+.+|++.++....+.+++..+.+++|||+|++.|..++..++++++++|+
T Consensus         5 ~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iil   84 (199)
T cd04110           5 HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIV   84 (199)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEE
Confidence            46999999999999999999999999988899999999988888889989999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |||+++++||+.+..|++.+....+..|++|||||+|+.     .......+++..+++..+++++++||++|.||+++|
T Consensus        85 v~D~~~~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf  159 (199)
T cd04110          85 VYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDP-----ERKVVETEDAYKFAGQMGISLFETSAKENINVEEMF  159 (199)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccc-----cccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHH
Confidence            999999999999999999998877666778999999972     122334677888999999999999999999999999


Q ss_pred             HHHHHHHhcCc
Q 041042          242 KFITAKLFDIP  252 (268)
Q Consensus       242 ~~l~~~i~~~~  252 (268)
                      ++|++.++...
T Consensus       160 ~~l~~~~~~~~  170 (199)
T cd04110         160 NCITELVLRAK  170 (199)
T ss_pred             HHHHHHHHHhh
Confidence            99999888754

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=5.5e-34  Score=229.54  Aligned_cols=163  Identities=21%  Similarity=0.305  Sum_probs=140.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+.+|..+.|...+.+|++. .....+.+++..+.+++|||+|++.|..++..+++++|++|+||
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICF   80 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCccee-eeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEE
Confidence            79999999999999999999999999999999874 44566778999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCC------c-cchhchHHHHHHHHHHhCC-eEEEEcCCCC
Q 041042          164 DLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLP------I-DLQWTIASQARAYAKALNA-TLFFSSATYN  234 (268)
Q Consensus       164 D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~------~-~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~  234 (268)
                      |+++++||+++. .|+..+....++.|.||||||+||..+-.      . ..+.+..+++.+++++++. +|+||||++|
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~  160 (174)
T cd01871          81 SLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQ  160 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeccccc
Confidence            999999999996 69998887776666689999999732100      0 0123558899999999985 9999999999


Q ss_pred             cCHHHHHHHHHHH
Q 041042          235 INVNKILKFITAK  247 (268)
Q Consensus       235 ~~i~~~f~~l~~~  247 (268)
                      .|++++|+.+++.
T Consensus       161 ~~i~~~f~~l~~~  173 (174)
T cd01871         161 KGLKTVFDEAIRA  173 (174)
T ss_pred             CCHHHHHHHHHHh
Confidence            9999999999864

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=7e-34  Score=226.28  Aligned_cols=162  Identities=17%  Similarity=0.334  Sum_probs=145.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|.++.+...+.+|++.++..+.+.+++..+.+++|||+|++.|..++..+++++|++|+||
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVY   80 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEE
Confidence            59999999999999999999999999999999999998888999999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCC------CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQ------TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~------~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |++++++|+.+..|+.++.+...      ..|+++|+||+|+.   .  ......++.+.+++..+++++++||++|.|+
T Consensus        81 D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~---~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  155 (168)
T cd04119          81 DVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLT---K--HRAVSEDEGRLWAESKGFKYFETSACTGEGV  155 (168)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcc---c--ccccCHHHHHHHHHHcCCeEEEEECCCCCCH
Confidence            99999999999999999988753      33446999999972   1  2334477778889999999999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 041042          238 NKILKFITAKLFD  250 (268)
Q Consensus       238 ~~~f~~l~~~i~~  250 (268)
                      +++|++|++.+++
T Consensus       156 ~~l~~~l~~~l~~  168 (168)
T cd04119         156 NEMFQTLFSSIVD  168 (168)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999988763

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.

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=7.4e-34  Score=225.47  Aligned_cols=159  Identities=16%  Similarity=0.263  Sum_probs=139.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||++++..+.|...+.+|++ +...+.+.+++..+.+++|||+|+++|..++..|++++|++++||
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVY   80 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEE
Confidence            7999999999999999999999999888889887 455577888999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |+++.++|+.+..|++.+....  .+.|.||||||+|+.    . .+....+++..+++.++++++++||++|.|++++|
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~----~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~  155 (163)
T cd04136          81 SITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLE----D-ERVVSREEGQALARQWGCPFYETSAKSKINVDEVF  155 (163)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc----c-cceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Confidence            9999999999999999988763  345557999999972    1 22334667788888889999999999999999999


Q ss_pred             HHHHHHH
Q 041042          242 KFITAKL  248 (268)
Q Consensus       242 ~~l~~~i  248 (268)
                      +++++.+
T Consensus       156 ~~l~~~~  162 (163)
T cd04136         156 ADLVRQI  162 (163)
T ss_pred             HHHHHhc
Confidence            9998765

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.

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=1.6e-33  Score=223.87  Aligned_cols=160  Identities=23%  Similarity=0.390  Sum_probs=143.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||++++.++.|.+.+.+|.+.++..+.+.+++..+.+++|||+|+++|..++..+++++|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVF   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999999998888888888888778888999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKF  243 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~  243 (268)
                      |++++.+|+++..|+..+.+..++.|.+||+||+|+.    .    ...++...+++..+++++++||++|.|++++|+.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~----~----~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~  152 (161)
T cd04124          81 DVTRKITYKNLSKWYEELREYRPEIPCIVVANKIDLD----P----SVTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQD  152 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEECccCc----h----hHHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999998876666778999999961    1    1234556778888999999999999999999999


Q ss_pred             HHHHHhcC
Q 041042          244 ITAKLFDI  251 (268)
Q Consensus       244 l~~~i~~~  251 (268)
                      +++.+.+.
T Consensus       153 l~~~~~~~  160 (161)
T cd04124         153 AIKLAVSY  160 (161)
T ss_pred             HHHHHHhc
Confidence            99888754

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=100.00  E-value=8.9e-34  Score=232.10  Aligned_cols=163  Identities=21%  Similarity=0.296  Sum_probs=132.9

Q ss_pred             eEEEEEEcCCCChHHHHHH-HHhcC-----CCCCCCCCCcce-eeEEEE--------EEECCeEEEEEEEeCCCcccccc
Q 041042           83 ALKISLLGDCHIGKTSFLE-KYVGD-----EKEQGGSPGEGL-NMMDKT--------LLVRGARISYSIWEVTGDAKAQD  147 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~-~l~~~-----~~~~~~~~t~~~-~~~~~~--------~~~~~~~~~l~i~Dt~G~~~~~~  147 (268)
                      .+||+++|++|||||||+. ++.++     .|...+.||++. +.+...        +.+++..+.+++|||+|++.  .
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--K   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--h
Confidence            4899999999999999995 66554     355678899863 333222        25789999999999999986  3


Q ss_pred             chhhhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCC--------------ccchhchH
Q 041042          148 HLPVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLP--------------IDLQWTIA  212 (268)
Q Consensus       148 ~~~~~~~~a~~vilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~--------------~~~~~~~~  212 (268)
                      +...+|+++|++|+|||++++.||+++. .|++.+....++.|+||||||+||.....              ...+.+..
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~  159 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPP  159 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccccccchhhhcccccccccccCCccCH
Confidence            5677899999999999999999999997 69999988776666689999999742100              01245568


Q ss_pred             HHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHH
Q 041042          213 SQARAYAKALNATLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       213 ~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      ++++++|++++++|+||||++|.||+++|+.+++.
T Consensus       160 ~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         160 ETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            99999999999999999999999999999999864

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.

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=1.7e-33  Score=224.00  Aligned_cols=160  Identities=18%  Similarity=0.236  Sum_probs=140.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++||+++|++|||||||++++..+.+...+.+|++..+. +.+.+++..+.+++|||+|+++|..++..+++++|++++|
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLV   79 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheEE-EEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEE
Confidence            479999999999999999999999998888899886654 6778889999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ||+++.++|+.+..|+..+....  .+.|.+|||||+|+..     ......+++..+++.++++++++||++|.|++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  154 (164)
T cd04175          80 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED-----ERVVGKEQGQNLARQWGCAFLETSAKAKINVNEI  154 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchh-----ccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHH
Confidence            99999999999999999987653  3455579999999731     1223356678889999999999999999999999


Q ss_pred             HHHHHHHH
Q 041042          241 LKFITAKL  248 (268)
Q Consensus       241 f~~l~~~i  248 (268)
                      |.++++.+
T Consensus       155 ~~~l~~~l  162 (164)
T cd04175         155 FYDLVRQI  162 (164)
T ss_pred             HHHHHHHh
Confidence            99998765

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

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=1.6e-33  Score=233.54  Aligned_cols=165  Identities=22%  Similarity=0.443  Sum_probs=146.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEE-CCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV-RGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      .+||+++|++|||||||+++|.++.+...+.+|+|.++..+.+.+ ++..+.+++|||+|+++|..++..+++++|++|+
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil   81 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLL   81 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEE
Confidence            589999999999999999999999998888899999998888877 4678999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC-CCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN-QTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~-~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||+++++||+++..|+..+.... +..++ +|||||+|+.     ....+..+++..+++.++++|+++||++|.||++
T Consensus        82 v~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e  156 (211)
T cd04111          82 VFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLE-----SQRQVTREEAEKLAKDLGMKYIETSARTGDNVEE  156 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccc-----cccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHH
Confidence            999999999999999999998764 34455 6999999973     1234557788999999999999999999999999


Q ss_pred             HHHHHHHHHhcCc
Q 041042          240 ILKFITAKLFDIP  252 (268)
Q Consensus       240 ~f~~l~~~i~~~~  252 (268)
                      +|++|++.+.+..
T Consensus       157 ~f~~l~~~~~~~~  169 (211)
T cd04111         157 AFELLTQEIYERI  169 (211)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999887663

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.

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=2.9e-33  Score=222.82  Aligned_cols=161  Identities=22%  Similarity=0.448  Sum_probs=145.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||++++.++.+...+.+|++.++..+.+..++..+.+++||++|++++..++..++++++++|+|
T Consensus         3 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v   82 (165)
T cd01868           3 LFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLV   82 (165)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEE
Confidence            58999999999999999999999999888999999999888999999889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      ||+++.++|+.+..|+..+.......+| +|||||+|+.     ..+....++...+++..+++++++||++|.|++++|
T Consensus        83 ~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~  157 (165)
T cd01868          83 YDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLR-----HLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAF  157 (165)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-----ccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHH
Confidence            9999999999999999999888765455 6999999972     123344677888898889999999999999999999


Q ss_pred             HHHHHHH
Q 041042          242 KFITAKL  248 (268)
Q Consensus       242 ~~l~~~i  248 (268)
                      +++++.+
T Consensus       158 ~~l~~~i  164 (165)
T cd01868         158 KQLLTEI  164 (165)
T ss_pred             HHHHHHh
Confidence            9998875

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

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=1.8e-33  Score=229.71  Aligned_cols=163  Identities=20%  Similarity=0.263  Sum_probs=141.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      ||+++|++|||||||+++|..+.|...+.+|++..+. +.+.+++..+.+++|||+|+++|..++..|++++|++|+|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYR-KQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            6899999999999999999999998889999886653 566788889999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhC----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          165 LTSRCTLKSVIRWYQQARKCN----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      +++.+||+.+..|++.+....    .+.|+||||||+|+.    . .+.+..+++..+++.++++|+++||++|.|++++
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~----~-~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l  154 (190)
T cd04144          80 ITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV----Y-EREVSTEEGAALARRLGCEFIEASAKTNVNVERA  154 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhcc----c-cCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHH
Confidence            999999999999999987653    244557999999972    1 2334466778899999999999999999999999


Q ss_pred             HHHHHHHHhcCcc
Q 041042          241 LKFITAKLFDIPW  253 (268)
Q Consensus       241 f~~l~~~i~~~~~  253 (268)
                      |+++++.+.+...
T Consensus       155 ~~~l~~~l~~~~~  167 (190)
T cd04144         155 FYTLVRALRQQRQ  167 (190)
T ss_pred             HHHHHHHHHHhhc
Confidence            9999988876553

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.

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=2.9e-33  Score=227.96  Aligned_cols=164  Identities=20%  Similarity=0.393  Sum_probs=146.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|.++.|...+.+|+|.++..+.+.+++..+.+++|||+|++.|..++..+++++|++|+||
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~   80 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVY   80 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEE
Confidence            58999999999999999999999998889999999888888889999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      |+++++||+.+..|+..+.......+| ||||||+|+.     +...+..+++..+++..+++++++||++|.|++++|+
T Consensus        81 d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~  155 (188)
T cd04125          81 DVTDQESFENLKFWINEINRYARENVIKVIVANKSDLV-----NNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFI  155 (188)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCc-----ccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            999999999999999999887654444 7999999972     1223346777889999999999999999999999999


Q ss_pred             HHHHHHhcCc
Q 041042          243 FITAKLFDIP  252 (268)
Q Consensus       243 ~l~~~i~~~~  252 (268)
                      ++++.+....
T Consensus       156 ~l~~~~~~~~  165 (188)
T cd04125         156 LLVKLIIKRL  165 (188)
T ss_pred             HHHHHHHHHh
Confidence            9999987654

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=2.4e-33  Score=222.42  Aligned_cols=159  Identities=19%  Similarity=0.397  Sum_probs=143.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC--CeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR--GARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +||+++|++|||||||+++|.++.+...+.+|++.++..+.+.++  +..+.+++|||+|+++|..++..+++++|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            589999999999999999999999988999999999887777777  788999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |||++++++|+.+..|+..+.....+.|+|+|+||+|+.   .  ...+..+++..+++..+++++++||++|.|++++|
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~~~~p~iiv~nK~Dl~---~--~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~  155 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAECGDIPMVLVQTKIDLL---D--QAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELF  155 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhcc---c--ccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHH
Confidence            999999999999999999998777677778999999972   1  12334678889999999999999999999999999


Q ss_pred             HHHHHH
Q 041042          242 KFITAK  247 (268)
Q Consensus       242 ~~l~~~  247 (268)
                      ++|...
T Consensus       156 ~~l~~~  161 (162)
T cd04106         156 EYLAEK  161 (162)
T ss_pred             HHHHHh
Confidence            999764

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

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

Probab=100.00  E-value=3.7e-33  Score=220.80  Aligned_cols=159  Identities=14%  Similarity=0.225  Sum_probs=140.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++||+++|++|||||||+++|.++.|...+.+|++..+ .+.+.+++..+.+++|||+|+++|..++..|+++++++++|
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v   79 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   79 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEE
Confidence            37999999999999999999999999888899887655 56678888889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ||+++..+|+++..|+..+.+..  .+.|++||+||+|+.      .+....+++..+++..+++++++||++|.|++++
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  153 (162)
T cd04138          80 FAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLA------ARTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEA  153 (162)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc------cceecHHHHHHHHHHhCCeEEEecCCCCCCHHHH
Confidence            99999999999999999988764  344557999999972      2334467788889999999999999999999999


Q ss_pred             HHHHHHHH
Q 041042          241 LKFITAKL  248 (268)
Q Consensus       241 f~~l~~~i  248 (268)
                      |+++++.+
T Consensus       154 ~~~l~~~~  161 (162)
T cd04138         154 FYTLVREI  161 (162)
T ss_pred             HHHHHHHh
Confidence            99998754

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.

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=3e-33  Score=228.14  Aligned_cols=164  Identities=14%  Similarity=0.217  Sum_probs=144.0

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|.++.|...+.+|++.++ .+.+.+++..+.+++|||+|+++|..++..|++++|++|+
T Consensus         4 ~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iil   82 (189)
T PTZ00369          4 TEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLC   82 (189)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEE
Confidence            359999999999999999999999999888999988766 4677889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||+++.++|+.+..|+..+.....  +.|.||||||+|+.    . ...+..+++..+++.+++++++|||++|.||++
T Consensus        83 v~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~----~-~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~  157 (189)
T PTZ00369         83 VYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLD----S-ERQVSTGEGQELAKSFGIPFLETSAKQRVNVDE  157 (189)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc----c-ccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHH
Confidence            9999999999999999999877642  44557999999962    1 223346678888888999999999999999999


Q ss_pred             HHHHHHHHHhcC
Q 041042          240 ILKFITAKLFDI  251 (268)
Q Consensus       240 ~f~~l~~~i~~~  251 (268)
                      +|++|++.+.+.
T Consensus       158 ~~~~l~~~l~~~  169 (189)
T PTZ00369        158 AFYELVREIRKY  169 (189)
T ss_pred             HHHHHHHHHHHH
Confidence            999999888765

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=4e-33  Score=232.07  Aligned_cols=167  Identities=24%  Similarity=0.413  Sum_probs=149.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ..+.+||+++|++|||||||+++|.++.+...+.+|+|.++..+.+.+++..+.+++|||+|+++|..++..++++++++
T Consensus         9 ~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~   88 (216)
T PLN03110          9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA   88 (216)
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEE
Confidence            44679999999999999999999999999888999999999989999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++.++|+.+..|+..+.......+| ++||||+||.     ..+.+..++++.++..++++++++||++|.|++
T Consensus        89 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~-----~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~  163 (216)
T PLN03110         89 LLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLN-----HLRSVAEEDGQALAEKEGLSFLETSALEATNVE  163 (216)
T ss_pred             EEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcc-----cccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            9999999999999999999999887654445 7999999972     223344678889999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|+++++.+.+.
T Consensus       164 ~lf~~l~~~i~~~  176 (216)
T PLN03110        164 KAFQTILLEIYHI  176 (216)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999888664

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=4.3e-33  Score=223.05  Aligned_cols=161  Identities=20%  Similarity=0.325  Sum_probs=143.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|.++.|.+.+.+|+|.++..+.+.+++..+.+++||++|++++..++..+++++|++++
T Consensus         4 ~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~   83 (170)
T cd04116           4 SLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLL   83 (170)
T ss_pred             eEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEE
Confidence            46999999999999999999999999988889999998888888899999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCC-----CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-CeEEEEcCCCCc
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQ-----TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-ATLFFSSATYNI  235 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~-----~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~  235 (268)
                      |||+++.+||+.+..|+..+.....     +.|.+|||||+|+      ..+....+++++++++++ ++++++||++|.
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl------~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~  157 (170)
T cd04116          84 TFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDI------PERQVSTEEAQAWCRENGDYPYFETSAKDAT  157 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccc------cccccCHHHHHHHHHHCCCCeEEEEECCCCC
Confidence            9999999999999999998876532     2344799999997      233445778899999988 489999999999


Q ss_pred             CHHHHHHHHHHHH
Q 041042          236 NVNKILKFITAKL  248 (268)
Q Consensus       236 ~i~~~f~~l~~~i  248 (268)
                      |++++|+++++.+
T Consensus       158 ~v~~~~~~~~~~~  170 (170)
T cd04116         158 NVAAAFEEAVRRV  170 (170)
T ss_pred             CHHHHHHHHHhhC
Confidence            9999999998753

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

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=2.2e-33  Score=233.36  Aligned_cols=165  Identities=21%  Similarity=0.362  Sum_probs=138.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|..+.|.. +.+|+|.++..+.+    ..+.+.+|||+|++.|..++..|++++|++|+||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~   75 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTY   75 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEE
Confidence            589999999999999999999999864 68899887764433    4678999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCC--------------ccchhchHHHHHHHHHHhC-----
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLP--------------IDLQWTIASQARAYAKALN-----  223 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~--------------~~~~~~~~~~~~~~~~~~~-----  223 (268)
                      |+++++||+++..|+..+.+... +.|.||||||+||.....              +..+.+..+++..++++.+     
T Consensus        76 Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~  155 (220)
T cd04126          76 DVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKML  155 (220)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccc
Confidence            99999999999988887776543 345579999999843100              0134556889999999987     


Q ss_pred             ---------CeEEEEcCCCCcCHHHHHHHHHHHHhcCcc
Q 041042          224 ---------ATLFFSSATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       224 ---------~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                               ++|+||||++|.||+++|..+++.+++...
T Consensus       156 ~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~  194 (220)
T cd04126         156 DEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLIL  194 (220)
T ss_pred             cccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHH
Confidence                     789999999999999999999998886553

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

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=3.8e-33  Score=227.92  Aligned_cols=166  Identities=20%  Similarity=0.389  Sum_probs=147.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCC-CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQ-GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      +||+++|++|||||||+++|.++.+.. .+.+|++.++..+.+.+++..+.+++|||+|++++..++..+++++|++|+|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   80 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL   80 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEE
Confidence            599999999999999999999998854 6788999888888888999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      ||+++.++|+++..|+..+....+..+| +|||||+|+.   .  .+.+..+++..+++.++++|+++||++|.|++++|
T Consensus        81 ~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~---~--~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~  155 (191)
T cd04112          81 YDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMS---G--ERVVKREDGERLAKEYGVPFMETSAKTGLNVELAF  155 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccch---h--ccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            9999999999999999999888765555 6999999972   1  23334677889999999999999999999999999


Q ss_pred             HHHHHHHhcCccc
Q 041042          242 KFITAKLFDIPWT  254 (268)
Q Consensus       242 ~~l~~~i~~~~~~  254 (268)
                      ++|++.+.+....
T Consensus       156 ~~l~~~~~~~~~~  168 (191)
T cd04112         156 TAVAKELKHRKYE  168 (191)
T ss_pred             HHHHHHHHHhccc
Confidence            9999999888644

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.

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=4.9e-33  Score=221.11  Aligned_cols=160  Identities=17%  Similarity=0.240  Sum_probs=139.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++||+++|++|||||||++++..+.+...+.+|++ ++..+.+.+++..+.+++|||+|+++|..++..|++++|++++|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   79 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEE
Confidence            47999999999999999999999999888888876 55667888899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ||+++.+||+++..|+..+....  .+.|.+|||||+|+..     ...+..++...+++..+++++++||++|.|++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l  154 (163)
T cd04176          80 YSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLES-----EREVSSAEGRALAEEWGCPFMETSAKSKTMVNEL  154 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchh-----cCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHH
Confidence            99999999999999999987763  3455579999999721     1223356678888888999999999999999999


Q ss_pred             HHHHHHHH
Q 041042          241 LKFITAKL  248 (268)
Q Consensus       241 f~~l~~~i  248 (268)
                      |.++++.+
T Consensus       155 ~~~l~~~l  162 (163)
T cd04176         155 FAEIVRQM  162 (163)
T ss_pred             HHHHHHhc
Confidence            99998754

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=100.00  E-value=3.5e-33  Score=221.36  Aligned_cols=154  Identities=22%  Similarity=0.345  Sum_probs=129.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|+.+.|...+.++ +..+ .+.+.+++..+.+++|||+|++.     ..+++++|++++||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~   73 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVF   73 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEE
Confidence            58999999999999999999999987776655 4445 47788999999999999999975     35778999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh-CCeEEEEcCCCCcCHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-NATLFFSSATYNINVNKI  240 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i~~~  240 (268)
                      |++|++||+++..|++.+....  ++.|.+|||||+||.   ....+.+..+++.+++++. ++.|+||||++|.||+++
T Consensus        74 d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~---~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~  150 (158)
T cd04103          74 SLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAIS---ESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERV  150 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhh---hcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHH
Confidence            9999999999999999998875  344557999999962   1123445577888999887 589999999999999999


Q ss_pred             HHHHHHH
Q 041042          241 LKFITAK  247 (268)
Q Consensus       241 f~~l~~~  247 (268)
                      |+.+++.
T Consensus       151 f~~~~~~  157 (158)
T cd04103         151 FQEAAQK  157 (158)
T ss_pred             HHHHHhh
Confidence            9999865

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.

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=9.4e-33  Score=220.95  Aligned_cols=164  Identities=19%  Similarity=0.343  Sum_probs=147.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|.+|||||||++++.++.+...+.+|.|.++....+.+++..+.+.+|||+|++++..+...+++++|++++
T Consensus         3 ~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~   82 (168)
T cd01866           3 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL   82 (168)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEE
Confidence            45899999999999999999999999988888999999988888899989999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC-CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      |||+++++||+.+..|+..+.... ++.|+||||||.|+.     .......+++..+++..++.++++||++|.|++++
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~  157 (168)
T cd01866          83 VYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLE-----SRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEA  157 (168)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-----cccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999998865 445557999999973     12334567788899999999999999999999999


Q ss_pred             HHHHHHHHhc
Q 041042          241 LKFITAKLFD  250 (268)
Q Consensus       241 f~~l~~~i~~  250 (268)
                      |.++++.+++
T Consensus       158 ~~~~~~~~~~  167 (168)
T cd01866         158 FINTAKEIYE  167 (168)
T ss_pred             HHHHHHHHHh
Confidence            9999998765

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=4.9e-33  Score=226.26  Aligned_cols=169  Identities=20%  Similarity=0.239  Sum_probs=145.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC-CeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      +||+++|++|||||||+++|.++.|...+.+|++.++.. .+... +..+.+++|||+|+++|..++..+++++|++|+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~-~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v   79 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVT-NIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLIC   79 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEE-EEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEE
Confidence            589999999999999999999999998999998877654 45554 7889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~~  240 (268)
                      ||+++.+||+++. .|+..+....++.|+||||||+|+....+ ..+.+..++++++++.+++ ++++|||++|.||+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~-~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~  158 (187)
T cd04132          80 YAVDNPTSLDNVEDKWFPEVNHFCPGTPIMLVGLKTDLRKDKN-LDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEV  158 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhhhCcc-ccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHH
Confidence            9999999999996 69988887776677789999999732211 1123447789999999998 9999999999999999


Q ss_pred             HHHHHHHHhcCccc
Q 041042          241 LKFITAKLFDIPWT  254 (268)
Q Consensus       241 f~~l~~~i~~~~~~  254 (268)
                      |+.+++.+......
T Consensus       159 f~~l~~~~~~~~~~  172 (187)
T cd04132         159 FDTAIEEALKKEGK  172 (187)
T ss_pred             HHHHHHHHHhhhhh
Confidence            99999999877644

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.

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=7e-33  Score=220.81  Aligned_cols=161  Identities=21%  Similarity=0.395  Sum_probs=142.9

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +.+||+++|++|||||||++++..+.+...+.+|.+.++..+.+.+++..+.+++|||+|+++|..++..+++.+|++++
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~ll   81 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAII   81 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            45899999999999999999999999988888999988888888899988999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~  239 (268)
                      |||++++++|+.+..|+..+..... +.|+|+|+||+|+.     ..+....+++..+++.+++ .++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~  156 (165)
T cd01864          82 AYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLE-----EQREVLFEEACTLAEKNGMLAVLETSAKESQNVEE  156 (165)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccc-----cccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHH
Confidence            9999999999999999999987654 44557999999973     1233446778889998886 689999999999999


Q ss_pred             HHHHHHHH
Q 041042          240 ILKFITAK  247 (268)
Q Consensus       240 ~f~~l~~~  247 (268)
                      +|+++++.
T Consensus       157 ~~~~l~~~  164 (165)
T cd01864         157 AFLLMATE  164 (165)
T ss_pred             HHHHHHHh
Confidence            99999875

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.

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=9.1e-33  Score=225.81  Aligned_cols=168  Identities=20%  Similarity=0.322  Sum_probs=147.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCC-CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQ-GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      +||+++|++|||||||+++|+++.|.. .+.+|+|.++..+.+.+++..+.+++|||+|++++..++..+++++|++++|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv   80 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVC   80 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEE
Confidence            599999999999999999999999874 6888999988888899999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      ||+++.++|+++..|++.+....++.|.+||+||+|+..... ....+..+++.+++...+++++++||++|.|++++|+
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~-~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  159 (193)
T cd04118          81 YDLTDSSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIEQDR-SLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQ  159 (193)
T ss_pred             EECCCHHHHHHHHHHHHHHHhcCCCCCEEEEEEccccccccc-ccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            999999999999999999988766666689999999732111 1123335678889999999999999999999999999


Q ss_pred             HHHHHHhcCc
Q 041042          243 FITAKLFDIP  252 (268)
Q Consensus       243 ~l~~~i~~~~  252 (268)
                      ++++.+.+..
T Consensus       160 ~i~~~~~~~~  169 (193)
T cd04118         160 KVAEDFVSRA  169 (193)
T ss_pred             HHHHHHHHhc
Confidence            9999887653

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

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=1.5e-32  Score=227.73  Aligned_cols=166  Identities=19%  Similarity=0.320  Sum_probs=148.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +.+||+|+|++|||||||+++|.+..|...+.+|++.++..+.+.+++..+.+++|||+|++.|..++..+++++|++|+
T Consensus         5 ~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vl   84 (210)
T PLN03108          5 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALL   84 (210)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEE
Confidence            46999999999999999999999999988889999999988889999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      |||+++.++|+.+..|+..+....... |.++|+||+|+.     ..+....++++++++.++++++++||+++.||+++
T Consensus        85 v~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~  159 (210)
T PLN03108         85 VYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLA-----HRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEA  159 (210)
T ss_pred             EEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCc-----cccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            999999999999999999887765444 447999999972     22334578889999999999999999999999999


Q ss_pred             HHHHHHHHhcCc
Q 041042          241 LKFITAKLFDIP  252 (268)
Q Consensus       241 f~~l~~~i~~~~  252 (268)
                      |+++++.+++..
T Consensus       160 f~~l~~~~~~~~  171 (210)
T PLN03108        160 FIKTAAKIYKKI  171 (210)
T ss_pred             HHHHHHHHHHHh
Confidence            999999887653

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

Probab=100.00  E-value=1.3e-32  Score=221.00  Aligned_cols=164  Identities=21%  Similarity=0.323  Sum_probs=141.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDL  165 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~  165 (268)
                      |+|+|++|||||||+++|.++.|...+.+|++..+ ...+.+++..+.+++|||+|++.|..++..+++++|++|+|||+
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~   79 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSV   79 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEEC
Confidence            68999999999999999999999888888877555 45677889999999999999999999999999999999999999


Q ss_pred             CChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCC-------ccchhchHHHHHHHHHHhCC-eEEEEcCCCCcC
Q 041042          166 TSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLP-------IDLQWTIASQARAYAKALNA-TLFFSSATYNIN  236 (268)
Q Consensus       166 ~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~-------~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~  236 (268)
                      ++.+||+++. .|+..+....++.|+||||||+|+.....       .....+..+++.++++..++ .|++|||++|.|
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~  159 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFCPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEG  159 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCC
Confidence            9999999996 69999988877777789999999742110       00122457888999999996 999999999999


Q ss_pred             HHHHHHHHHHHHhc
Q 041042          237 VNKILKFITAKLFD  250 (268)
Q Consensus       237 i~~~f~~l~~~i~~  250 (268)
                      |+++|+.+++.+++
T Consensus       160 v~~lf~~l~~~~~~  173 (174)
T smart00174      160 VREVFEEAIRAALN  173 (174)
T ss_pred             HHHHHHHHHHHhcC
Confidence            99999999988764

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

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=1.5e-32  Score=217.92  Aligned_cols=160  Identities=20%  Similarity=0.368  Sum_probs=143.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||++++.++.+...+.+|.+.++....+.+++..+.+++||++|++.|..++..+++++|++++||
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEE
Confidence            59999999999999999999999998889999998888888889999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      |+++.++|+.+..|+..+..... +.|.+||+||+|+.     .......+++..+++..++.++++||+++.|++++|+
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~  155 (161)
T cd04113          81 DITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLA-----DQREVTFLEASRFAQENGLLFLETSALTGENVEEAFL  155 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcc-----hhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHH
Confidence            99999999999999999877654 44557999999972     1233447788999999999999999999999999999


Q ss_pred             HHHHHH
Q 041042          243 FITAKL  248 (268)
Q Consensus       243 ~l~~~i  248 (268)
                      ++++.+
T Consensus       156 ~~~~~~  161 (161)
T cd04113         156 KCARSI  161 (161)
T ss_pred             HHHHhC
Confidence            998763

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

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=1.6e-32  Score=218.88  Aligned_cols=158  Identities=16%  Similarity=0.229  Sum_probs=137.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++++++.|...+.+|++..+ .+.+..++..+.+++|||+|+++|..++..+++.+|++|+||
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVY   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEE
Confidence            7999999999999999999999999888889887555 456667788899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |+++.+||+++..|++.+....    ++.|.+|||||+|+..     .+.+..+++..++..+++.|++|||++|.|+++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~-----~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~  155 (165)
T cd04140          81 SVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESH-----KREVSSNEGAACATEWNCAFMETSAKTNHNVQE  155 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccc-----cCeecHHHHHHHHHHhCCcEEEeecCCCCCHHH
Confidence            9999999999999998887653    3455579999999721     133446678888999999999999999999999


Q ss_pred             HHHHHHHH
Q 041042          240 ILKFITAK  247 (268)
Q Consensus       240 ~f~~l~~~  247 (268)
                      +|++|++.
T Consensus       156 ~f~~l~~~  163 (165)
T cd04140         156 LFQELLNL  163 (165)
T ss_pred             HHHHHHhc
Confidence            99999753

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=2.9e-32  Score=218.53  Aligned_cols=161  Identities=22%  Similarity=0.420  Sum_probs=143.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc-cchhhhhcCCcEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ-DHLPVACKDSIAILF  161 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-~~~~~~~~~a~~vil  161 (268)
                      .+||+++|++|||||||++++..+.+...+.+|++.++..+.+.+++..+.+++|||+|+++|. .++..+++++|++++
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~   81 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVF   81 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEE
Confidence            4899999999999999999999999988899999999988889999999999999999999886 578899999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCC---CcC
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATY---NIN  236 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~~  236 (268)
                      |||++++++|+.+..|++.+....  .+.|.|||+||+|+.     ..+.+..+++.++++..+++|++|||++   +.|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~  156 (170)
T cd04115          82 VYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLR-----EQIQVPTDLAQRFADAHSMPLFETSAKDPSENDH  156 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccch-----hhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCC
Confidence            999999999999999999998764  345557999999972     1233446788899999999999999999   999


Q ss_pred             HHHHHHHHHHHH
Q 041042          237 VNKILKFITAKL  248 (268)
Q Consensus       237 i~~~f~~l~~~i  248 (268)
                      ++++|..+++.+
T Consensus       157 i~~~f~~l~~~~  168 (170)
T cd04115         157 VEAIFMTLAHKL  168 (170)
T ss_pred             HHHHHHHHHHHh
Confidence            999999999876

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=3.5e-32  Score=216.29  Aligned_cols=160  Identities=14%  Similarity=0.225  Sum_probs=139.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|.++.+...+.+|++. ...+.+.+++..+.+++|||+|+++|..++..+++++|++++||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIED-SYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhh-hEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            59999999999999999999999998888888774 44567788888999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |+++.++|+.+..|+..+.+..  .+.|.++||||+|+.    . .+....+++..+++..+++++++||++|.|++++|
T Consensus        80 d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~----~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  154 (164)
T smart00173       80 SITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLE----S-ERVVSTEEGKELARQWGCPFLETSAKERVNVDEAF  154 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc----c-cceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHH
Confidence            9999999999999998887653  244557999999972    1 12344677888999999999999999999999999


Q ss_pred             HHHHHHHh
Q 041042          242 KFITAKLF  249 (268)
Q Consensus       242 ~~l~~~i~  249 (268)
                      ++|++.+.
T Consensus       155 ~~l~~~~~  162 (164)
T smart00173      155 YDLVREIR  162 (164)
T ss_pred             HHHHHHHh
Confidence            99998764

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=100.00  E-value=3.4e-32  Score=216.39  Aligned_cols=160  Identities=18%  Similarity=0.332  Sum_probs=139.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC--CCCCCCCCCcceeeEEEEEEEC-CeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD--EKEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~--~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      +||+++|++|||||||++++..+  .|...+.+|+|.++..+.+.++ +..+.+++|||+|++.+..++..+++++|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            59999999999999999999865  6888899999999887777775 57799999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      +|||+++.++|+.+..|++.+.......|.|+|+||+|+.   +  .......+++.++..++++++++||++|.|++++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~---~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  155 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTASKHMPGVLVGNKMDLA---D--KAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEP  155 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccc---c--ccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHH
Confidence            9999999999999999999998876666668999999972   1  1223355567788888999999999999999999


Q ss_pred             HHHHHHHH
Q 041042          241 LKFITAKL  248 (268)
Q Consensus       241 f~~l~~~i  248 (268)
                      |+.+++.+
T Consensus       156 ~~~l~~~~  163 (164)
T cd04101         156 FESLARAF  163 (164)
T ss_pred             HHHHHHHh
Confidence            99998875

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.

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=3.7e-32  Score=223.19  Aligned_cols=165  Identities=16%  Similarity=0.215  Sum_probs=137.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc--------hhhhhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH--------LPVACKD  155 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~--------~~~~~~~  155 (268)
                      +||+|+|++|||||||+++|+++.|...+.||++.++....+.+++..+.+++|||+|.+.+...        ...++++
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~   80 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN   80 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhcc
Confidence            58999999999999999999999998889999988877777888999999999999997655322        2345789


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhC----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-HhCCeEEEEc
Q 041042          156 SIAILFMFDLTSRCTLKSVIRWYQQARKCN----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-ALNATLFFSS  230 (268)
Q Consensus       156 a~~vilv~D~~~~~s~~~~~~~~~~i~~~~----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~S  230 (268)
                      +|++|+|||+++++||+.+..|++.+....    .+.|+||||||+|+.    . .+.+..++++.++. .++++|++||
T Consensus        81 ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~----~-~~~~~~~~~~~~~~~~~~~~~~e~S  155 (198)
T cd04142          81 SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQ----R-HRFAPRHVLSVLVRKSWKCGYLECS  155 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECcccc----c-cccccHHHHHHHHHHhcCCcEEEec
Confidence            999999999999999999999999887763    345557999999973    1 12334566777764 5689999999


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCcc
Q 041042          231 ATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      |++|.||+++|+.+++.+.....
T Consensus       156 ak~g~~v~~lf~~i~~~~~~~~~  178 (198)
T cd04142         156 AKYNWHILLLFKELLISATTRGR  178 (198)
T ss_pred             CCCCCCHHHHHHHHHHHhhccCC
Confidence            99999999999999998887653

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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=100.00  E-value=3.6e-32  Score=218.60  Aligned_cols=162  Identities=22%  Similarity=0.344  Sum_probs=138.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||++++.++.|...+.+|. .+.....+.+++..+.+++|||+|+++|..++..+++++|++|+||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTA-FDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCce-eeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            599999999999999999999999988888886 4555667888998999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCC-------ccchhchHHHHHHHHHHhCC-eEEEEcCCCC
Q 041042          164 DLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLP-------IDLQWTIASQARAYAKALNA-TLFFSSATYN  234 (268)
Q Consensus       164 D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~-------~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~  234 (268)
                      |+++++||+.+. .|+..+....++.|.++||||+|+.....       ...+.+..+++..+++..++ .|++|||++|
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~  159 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQ  159 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCCC
Confidence            999999999985 79988887655666689999999732110       01234457889999999987 8999999999


Q ss_pred             cCHHHHHHHHHH
Q 041042          235 INVNKILKFITA  246 (268)
Q Consensus       235 ~~i~~~f~~l~~  246 (268)
                      .||+++|+.++.
T Consensus       160 ~~v~~lf~~~~~  171 (173)
T cd04130         160 KNLKEVFDTAIL  171 (173)
T ss_pred             CCHHHHHHHHHh
Confidence            999999998764

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,

>cd01892 Miro2 Miro2 subfamily

Probab=100.00  E-value=3.4e-32  Score=218.06  Aligned_cols=163  Identities=15%  Similarity=0.081  Sum_probs=140.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      +.+||+++|++|||||||+++|+++.|. ..+.+|++.++..+.+.+++..+.+++||++|++.+..++..+++++|+++
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~l   82 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVAC   82 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEE
Confidence            4699999999999999999999999998 889999999888788888998899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe-EEEEcCCCCcCHHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT-LFFSSATYNINVNK  239 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~i~~  239 (268)
                      +|||++++++|+.+..|+..+... .+.|.++|+||+|+.    + .......+..++++.+++. ++++||++|.|+++
T Consensus        83 lv~d~~~~~s~~~~~~~~~~~~~~-~~~p~iiv~NK~Dl~----~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  156 (169)
T cd01892          83 LVYDSSDPKSFSYCAEVYKKYFML-GEIPCLFVAAKADLD----E-QQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNE  156 (169)
T ss_pred             EEEeCCCHHHHHHHHHHHHHhccC-CCCeEEEEEEccccc----c-cccccccCHHHHHHHcCCCCCEEEEeccCccHHH
Confidence            999999999999999999876432 244557999999972    1 1222234567788888874 69999999999999


Q ss_pred             HHHHHHHHHhc
Q 041042          240 ILKFITAKLFD  250 (268)
Q Consensus       240 ~f~~l~~~i~~  250 (268)
                      +|+.+++.+.+
T Consensus       157 lf~~l~~~~~~  167 (169)
T cd01892         157 LFTKLATAAQY  167 (169)
T ss_pred             HHHHHHHHhhC
Confidence            99999998764

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.

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

Probab=100.00  E-value=9.1e-32  Score=213.67  Aligned_cols=160  Identities=16%  Similarity=0.206  Sum_probs=138.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||++++.++.+...+.+|++..+ .....+++..+.+++|||+|++++..++..+++++|++++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceE-EEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            48999999999999999999999998888888887554 45667889889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ||+++.++|+.+..|+..+.+..  .+.|++||+||+|+.    . ......+++.++++..+++++++||++|.|++++
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~----~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  155 (164)
T cd04145          81 FSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLE----H-QRKVSREEGQELARKLKIPYIETSAKDRLNVDKA  155 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCcccc----c-cceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHH
Confidence            99999999999999999987752  344557999999972    1 1223456788899999999999999999999999


Q ss_pred             HHHHHHHH
Q 041042          241 LKFITAKL  248 (268)
Q Consensus       241 f~~l~~~i  248 (268)
                      |+++++.+
T Consensus       156 ~~~l~~~~  163 (164)
T cd04145         156 FHDLVRVI  163 (164)
T ss_pred             HHHHHHhh
Confidence            99998764

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=1.3e-31  Score=212.69  Aligned_cols=162  Identities=22%  Similarity=0.445  Sum_probs=144.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||++++.+..+...+.+|++.++....+.+++..+.+++||++|++.+..+...+++.+|++|+||
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEE
Confidence            59999999999999999999999998888899999888888889999899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      |+++.++++.+..|+..+..+.. +.|.++|+||+|+.   .  ......++++++++..+++++++||++|.|++++|+
T Consensus        81 d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~---~--~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~  155 (164)
T smart00175       81 DITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLE---D--QRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFE  155 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcc---c--ccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999988764 44447999999962   1  123346778888999999999999999999999999


Q ss_pred             HHHHHHhc
Q 041042          243 FITAKLFD  250 (268)
Q Consensus       243 ~l~~~i~~  250 (268)
                      ++.+.+.+
T Consensus       156 ~i~~~~~~  163 (164)
T smart00175      156 ELAREILK  163 (164)
T ss_pred             HHHHHHhh
Confidence            99998764

Rab GTPases are implicated in vesicle trafficking.

>PLN03118 Rab family protein; Provisional

Probab=100.00  E-value=2.3e-31  Score=220.77  Aligned_cols=171  Identities=22%  Similarity=0.399  Sum_probs=146.4

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      +....+||+++|++|||||||+++|.++.+ ..+.+|++.++....+.+++..+.+++|||+|+++|..++..+++++|+
T Consensus        10 ~~~~~~kv~ivG~~~vGKTsli~~l~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~   88 (211)
T PLN03118         10 GYDLSFKILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQG   88 (211)
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHhCCC-CCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCE
Confidence            355579999999999999999999999887 4678889988888888888888999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHH-HHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCc
Q 041042          159 ILFMFDLTSRCTLKSVIR-WYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNI  235 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~-~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  235 (268)
                      +|+|||++++++|+++.. |...+..+..  +.+.+|||||+|+.    . ......++...+++.+++.|+++||++|.
T Consensus        89 ~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~----~-~~~i~~~~~~~~~~~~~~~~~e~SAk~~~  163 (211)
T PLN03118         89 IILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRE----S-ERDVSREEGMALAKEHGCLFLECSAKTRE  163 (211)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc----c-cCccCHHHHHHHHHHcCCEEEEEeCCCCC
Confidence            999999999999999975 7776665532  34557999999973    1 12234677888899999999999999999


Q ss_pred             CHHHHHHHHHHHHhcCccch
Q 041042          236 NVNKILKFITAKLFDIPWTL  255 (268)
Q Consensus       236 ~i~~~f~~l~~~i~~~~~~~  255 (268)
                      |++++|++|.+.+.+.+...
T Consensus       164 ~v~~l~~~l~~~~~~~~~~~  183 (211)
T PLN03118        164 NVEQCFEELALKIMEVPSLL  183 (211)
T ss_pred             CHHHHHHHHHHHHHhhhhhh
Confidence            99999999999998876443

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=1.8e-31  Score=211.88  Aligned_cols=161  Identities=23%  Similarity=0.422  Sum_probs=144.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++||+++|++|||||||++++.++.+...+.+|.+.++..+.+.+++..+.+.+||++|++++...+..+++++|++++|
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   80 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVV   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEE
Confidence            48999999999999999999999999887889999888888999999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      ||+++.++|+.+..|+..+...... .|.++|+||+|+.    . ......++...+++..++.++++||++|.|++++|
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~----~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~  155 (163)
T cd01860          81 YDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLE----S-KRQVSTEEAQEYADENGLLFFETSAKTGENVNELF  155 (163)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc----c-cCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHH
Confidence            9999999999999999999887644 4457999999962    1 23344667888899999999999999999999999


Q ss_pred             HHHHHHH
Q 041042          242 KFITAKL  248 (268)
Q Consensus       242 ~~l~~~i  248 (268)
                      ++|++.+
T Consensus       156 ~~l~~~l  162 (163)
T cd01860         156 TEIAKKL  162 (163)
T ss_pred             HHHHHHh
Confidence            9999875

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=100.00  E-value=1.1e-31  Score=227.26  Aligned_cols=159  Identities=19%  Similarity=0.281  Sum_probs=137.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|+++.|...+.+|++ ++..+.+.+++..+.++||||+|++.|..++..++.++|++|+||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVf   79 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVF   79 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEE
Confidence            5899999999999999999999999888899987 666788889999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHh----------CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-hCCeEEEEcCC
Q 041042          164 DLTSRCTLKSVIRWYQQARKC----------NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-LNATLFFSSAT  232 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~----------~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~  232 (268)
                      |+++.+||+++..|++++...          ..+.|.||||||+|+.    . .+.+..+++.+++.. .++.++++||+
T Consensus        80 dv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~----~-~~~v~~~ei~~~~~~~~~~~~~evSAk  154 (247)
T cd04143          80 SLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRD----F-PREVQRDEVEQLVGGDENCAYFEVSAK  154 (247)
T ss_pred             eCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccch----h-ccccCHHHHHHHHHhcCCCEEEEEeCC
Confidence            999999999999999998754          1244557999999973    1 123446677777654 47889999999


Q ss_pred             CCcCHHHHHHHHHHHH
Q 041042          233 YNINVNKILKFITAKL  248 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i  248 (268)
                      +|.||+++|++|+..+
T Consensus       155 tg~gI~elf~~L~~~~  170 (247)
T cd04143         155 KNSNLDEMFRALFSLA  170 (247)
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            9999999999999865

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

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=2.5e-31  Score=210.62  Aligned_cols=159  Identities=23%  Similarity=0.435  Sum_probs=142.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|.+|||||||++++.+..+...+.++.+.++..+.+.+++..+.+++|||+|++++..++..+++++|++++||
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~   80 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEE
Confidence            48999999999999999999999998888999999999999999998899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      |++++++|+.+..|+..+..... +.|.++|+||+|+.     .......++...+++..+++++++||++|.|++++|+
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~  155 (161)
T cd01861          81 DITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLS-----DKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFR  155 (161)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhcc-----ccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999877654 35557999999962     2233446778888888999999999999999999999


Q ss_pred             HHHHH
Q 041042          243 FITAK  247 (268)
Q Consensus       243 ~l~~~  247 (268)
                      ++.+.
T Consensus       156 ~i~~~  160 (161)
T cd01861         156 KIASA  160 (161)
T ss_pred             HHHHh
Confidence            99875

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

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=100.00  E-value=1.3e-32  Score=220.27  Aligned_cols=171  Identities=19%  Similarity=0.261  Sum_probs=152.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC-CeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ..+|++|+|+.+||||+|+..+..+.|...|.||+- +.++..+.++ |+.+.+.+|||+||+.|..++...|.++|+++
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl   81 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFL   81 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEE
Confidence            468999999999999999999999999999999997 4555778885 99999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCC------Cc-cchhchHHHHHHHHHHhC-CeEEEEcC
Q 041042          161 FMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQL------PI-DLQWTIASQARAYAKALN-ATLFFSSA  231 (268)
Q Consensus       161 lv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~------~~-~~~~~~~~~~~~~~~~~~-~~~~~~Sa  231 (268)
                      +||++.+++||+++. +|+.++++++++.|.||||+|.||+...      .. ....+..+++..++++.| ..|+||||
T Consensus        82 ~cfsv~~p~S~~nv~~kW~pEi~~~cp~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcSa  161 (198)
T KOG0393|consen   82 LCFSVVSPESFENVKSKWIPEIKHHCPNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECSA  161 (198)
T ss_pred             EEEEcCChhhHHHHHhhhhHHHHhhCCCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeehh
Confidence            999999999999987 8999999999999999999999985211      00 112455899999999999 67999999


Q ss_pred             CCCcCHHHHHHHHHHHHhcCcc
Q 041042          232 TYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      ++..|++++|+..+..++..++
T Consensus       162 ~tq~~v~~vF~~a~~~~l~~~~  183 (198)
T KOG0393|consen  162 LTQKGVKEVFDEAIRAALRPPQ  183 (198)
T ss_pred             hhhCCcHHHHHHHHHHHhcccc
Confidence            9999999999999999988765

>cd04135 Tc10 TC10 subfamily

Probab=100.00  E-value=3.9e-31  Score=212.34  Aligned_cols=165  Identities=17%  Similarity=0.243  Sum_probs=140.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|.+|||||||+++|.++.|...+.+|++.. ....+.+++..+.+.+|||+|++.|..++..+++++|++++||
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   79 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDH-YAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF   79 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeee-eEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEE
Confidence            599999999999999999999999988888887644 3456778888999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCc-------cchhchHHHHHHHHHHhCC-eEEEEcCCCC
Q 041042          164 DLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPI-------DLQWTIASQARAYAKALNA-TLFFSSATYN  234 (268)
Q Consensus       164 D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~-------~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~  234 (268)
                      |++++++|+.+. .|+..+....++.|++|||||+|+...-..       ....+..+++..+++..++ +|++|||++|
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~  159 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEYAPNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQ  159 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcC
Confidence            999999999996 788888877666677899999997321100       0123447888999999986 7999999999


Q ss_pred             cCHHHHHHHHHHHHh
Q 041042          235 INVNKILKFITAKLF  249 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~  249 (268)
                      .||+++|+.+++.++
T Consensus       160 ~gi~~~f~~~~~~~~  174 (174)
T cd04135         160 KGLKTVFDEAILAIL  174 (174)
T ss_pred             CCHHHHHHHHHHHhC
Confidence            999999999998763

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

>cd01863 Rab18 Rab18 subfamily

Probab=100.00  E-value=5.6e-31  Score=208.70  Aligned_cols=158  Identities=22%  Similarity=0.406  Sum_probs=141.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|.+..+...+.+|.+.++....+.+++..+.+++|||+|++.+..+...+++++|++++||
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEE
Confidence            59999999999999999999999988888999999888888888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |+++.++|+.+..|++.+..+.  .+.|.++||||+|+.      ......++...+++..+++++++||++|.|++++|
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~  154 (161)
T cd01863          81 DVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKE------NREVTREEGLKFARKHNMLFIETSAKTRDGVQQAF  154 (161)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccc------ccccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHH
Confidence            9999999999999999998874  344457999999972      23344677888999999999999999999999999


Q ss_pred             HHHHHH
Q 041042          242 KFITAK  247 (268)
Q Consensus       242 ~~l~~~  247 (268)
                      +.+.+.
T Consensus       155 ~~~~~~  160 (161)
T cd01863         155 EELVEK  160 (161)
T ss_pred             HHHHHh
Confidence            999875

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.98  E-value=2.8e-31  Score=211.53  Aligned_cols=159  Identities=17%  Similarity=0.299  Sum_probs=135.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc-ccchhhhhcCCcEEEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA-QDHLPVACKDSIAILFMF  163 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~-~~~~~~~~~~a~~vilv~  163 (268)
                      ||+++|++|||||||+++++.+.|...+.+|++..+ .+.+.+++..+.+++|||+|++.+ ......+++.+|++|+||
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~   79 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVY   79 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEE
Confidence            699999999999999999999988888888876554 466788999999999999999863 456778899999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC---CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC-cCHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN---QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN-INVNK  239 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~---~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~-~~i~~  239 (268)
                      |+++.+||+.+..|+..+....   .+.|.|+||||+|+.     ..+.+..+++..+++..+++|+++||++| .||++
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~  154 (165)
T cd04146          80 SITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLL-----HYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHS  154 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchH-----HhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHH
Confidence            9999999999999999888764   255667999999962     12334467888999999999999999999 49999


Q ss_pred             HHHHHHHHHh
Q 041042          240 ILKFITAKLF  249 (268)
Q Consensus       240 ~f~~l~~~i~  249 (268)
                      +|+++++.+.
T Consensus       155 ~f~~l~~~~~  164 (165)
T cd04146         155 VFHELCREVR  164 (165)
T ss_pred             HHHHHHHHHh
Confidence            9999998764

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

>cd04148 RGK RGK subfamily

Probab=99.98  E-value=4.2e-31  Score=220.57  Aligned_cols=162  Identities=17%  Similarity=0.211  Sum_probs=138.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhc-CCcEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACK-DSIAILF  161 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~-~a~~vil  161 (268)
                      +||+++|++|||||||+++|..+.+. ..+.++.+.++..+.+.+++..+.+++|||+|++.  .+...+++ ++|++++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iil   78 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVV   78 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEE
Confidence            59999999999999999999988886 67777777678888899999999999999999983  34456667 9999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||+++++||+.+..|+..+....  .+.|.|||+||+|+.     ..+.+..+++.+++..++++|+++||++|.||++
T Consensus        79 V~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~-----~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~  153 (221)
T cd04148          79 VYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLA-----RSREVSVQEGRACAVVFDCKFIETSAGLQHNVDE  153 (221)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhcc-----ccceecHHHHHHHHHHcCCeEEEecCCCCCCHHH
Confidence            999999999999999999988764  345668999999972     1233446677889999999999999999999999


Q ss_pred             HHHHHHHHHhcCc
Q 041042          240 ILKFITAKLFDIP  252 (268)
Q Consensus       240 ~f~~l~~~i~~~~  252 (268)
                      +|+++++.+....
T Consensus       154 l~~~l~~~~~~~~  166 (221)
T cd04148         154 LLEGIVRQIRLRR  166 (221)
T ss_pred             HHHHHHHHHHhhh
Confidence            9999999887544

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.98  E-value=7e-31  Score=210.15  Aligned_cols=164  Identities=21%  Similarity=0.334  Sum_probs=143.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|.+|||||||++++.++.+...+.+|++.++..+.+.+++..+.+++||++|++.+..++..+++++|++|+||
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY   80 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEE
Confidence            59999999999999999999999998888899999988888899999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCC-----CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-CeEEEEcCCCCcCH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQ-----TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-ATLFFSSATYNINV  237 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~-----~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i  237 (268)
                      |++++++|+++..|.+.+.....     +.|+++|+||+|+.   .  ......++...+++..+ ++++++||++|.|+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~---~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv  155 (172)
T cd01862          81 DVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLE---E--KRQVSTKKAQQWCQSNGNIPYFETSAKEAINV  155 (172)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccc---c--ccccCHHHHHHHHHHcCCceEEEEECCCCCCH
Confidence            99999999999999988765532     44557999999972   1  22334667788888887 89999999999999


Q ss_pred             HHHHHHHHHHHhcCc
Q 041042          238 NKILKFITAKLFDIP  252 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~  252 (268)
                      +++|+++.+.+.+..
T Consensus       156 ~~l~~~i~~~~~~~~  170 (172)
T cd01862         156 EQAFETIARKALEQE  170 (172)
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999887763

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-

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.98  E-value=1.9e-31  Score=217.55  Aligned_cols=164  Identities=16%  Similarity=0.238  Sum_probs=148.4

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|.+|||||+|+.+|..+.|...|.||++ +.+.+.+.+++..+.+.|+||+|++.|..+...|++++|++++
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~l   80 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLL   80 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEE
Confidence            358999999999999999999999999999999998 6777999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh-CCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKC-NQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~-~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      ||+++|+.||+.+..+++.|.+. .... |.|+||||+||.     ..+.+..++++.++..++++|+|+||+.+.||++
T Consensus        81 Vysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~-----~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~  155 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLE-----RERQVSEEEGKALARSWGCAFIETSAKLNYNVDE  155 (196)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccch-----hccccCHHHHHHHHHhcCCcEEEeeccCCcCHHH
Confidence            99999999999999999999443 3344 447999999972     2256669999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC
Q 041042          240 ILKFITAKLFDI  251 (268)
Q Consensus       240 ~f~~l~~~i~~~  251 (268)
                      +|..|++.+-..
T Consensus       156 ~F~~L~r~~~~~  167 (196)
T KOG0395|consen  156 VFYELVREIRLP  167 (196)
T ss_pred             HHHHHHHHHHhh
Confidence            999999987763

>cd04177 RSR1 RSR1 subgroup

Probab=99.98  E-value=8.4e-31  Score=209.58  Aligned_cols=161  Identities=16%  Similarity=0.236  Sum_probs=139.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|.+|||||||+++|.++.+...+.+|++..+ .+.+.+++..+.+++|||+|+++|..++..+++.++++++|
T Consensus         1 ~~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv   79 (168)
T cd04177           1 DYKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSY-RKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLV   79 (168)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEE
Confidence            37999999999999999999999999888889888654 57778889899999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-CeEEEEcCCCCcCHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-ATLFFSSATYNINVNK  239 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~i~~  239 (268)
                      ||++++++|+.+..|...+.+..  .+.|.++|+||.|+.     ..+....+++..+++.++ ++++++||++|.|+++
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~-----~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~  154 (168)
T cd04177          80 YSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLE-----DDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDE  154 (168)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhcc-----ccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHH
Confidence            99999999999999999887642  345557999999972     123344667778888888 8999999999999999


Q ss_pred             HHHHHHHHHh
Q 041042          240 ILKFITAKLF  249 (268)
Q Consensus       240 ~f~~l~~~i~  249 (268)
                      +|+++++.++
T Consensus       155 ~f~~i~~~~~  164 (168)
T cd04177         155 VFIDLVRQII  164 (168)
T ss_pred             HHHHHHHHHh
Confidence            9999998664

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.98  E-value=1.4e-30  Score=209.28  Aligned_cols=164  Identities=20%  Similarity=0.294  Sum_probs=138.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      .||+++|++|||||||+++|.++.|...+.+|++..+. ..+.+++..+.+++|||+|++.|..++..+++++|++++||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCF   80 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceE-EEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEE
Confidence            69999999999999999999999998889999886654 56778889999999999999999999889999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCc-------cchhchHHHHHHHHHHhCC-eEEEEcCCCC
Q 041042          164 DLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPI-------DLQWTIASQARAYAKALNA-TLFFSSATYN  234 (268)
Q Consensus       164 D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~-------~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~  234 (268)
                      |+++.++|+.+. .|+..+....++.|+++|+||+|+......       ....+...+++++++..+. ++++|||++|
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  160 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTK  160 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccC
Confidence            999999999986 699988877666777899999997321000       0112335778888888875 8999999999


Q ss_pred             cCHHHHHHHHHHHH
Q 041042          235 INVNKILKFITAKL  248 (268)
Q Consensus       235 ~~i~~~f~~l~~~i  248 (268)
                      .|++++|++|++.+
T Consensus       161 ~~v~~lf~~l~~~~  174 (175)
T cd01870         161 EGVREVFEMATRAA  174 (175)
T ss_pred             cCHHHHHHHHHHHh
Confidence            99999999998765

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.97  E-value=3e-30  Score=204.07  Aligned_cols=160  Identities=24%  Similarity=0.461  Sum_probs=140.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|.+|||||||+++|.++.+...+.++++.++....+.+.+..+.+.+||++|++.+..++..+++++|++++||
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEE
Confidence            59999999999999999999999988778888887887778888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      |+++.++++.+..|++.+........ +++|+||+|+.     .......+++.++++..+++++++||++|.|++++|+
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~-----~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~  155 (162)
T cd04123          81 DITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLE-----RQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFL  155 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-----cccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999988765444 46999999972     1223345677788888999999999999999999999


Q ss_pred             HHHHHH
Q 041042          243 FITAKL  248 (268)
Q Consensus       243 ~l~~~i  248 (268)
                      ++.+.+
T Consensus       156 ~l~~~~  161 (162)
T cd04123         156 SLAKRM  161 (162)
T ss_pred             HHHHHh
Confidence            998875

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.97  E-value=6.1e-30  Score=204.34  Aligned_cols=163  Identities=20%  Similarity=0.389  Sum_probs=142.4

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|.+|||||||++++.++.+...+.+|++.++..+.+.+++..+.+.+||++|++.|...+..+++.+|+++
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i   84 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALI   84 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEE
Confidence            34699999999999999999999988888888889998888888899999999999999999999999899999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      +|||+++.++|+.+..|+..+.......+| ++|+||+|+.    . .+....+..+.+.+.....++++||++|.|+++
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~----~-~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~  159 (169)
T cd04114          85 LTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLA----E-RREVSQQRAEEFSDAQDMYYLETSAKESDNVEK  159 (169)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc----c-ccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHH
Confidence            999999999999999999998887654454 7999999962    1 223335566777887788999999999999999


Q ss_pred             HHHHHHHHH
Q 041042          240 ILKFITAKL  248 (268)
Q Consensus       240 ~f~~l~~~i  248 (268)
                      +|++|.+.+
T Consensus       160 l~~~i~~~~  168 (169)
T cd04114         160 LFLDLACRL  168 (169)
T ss_pred             HHHHHHHHh
Confidence            999999765

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.

>cd04129 Rho2 Rho2 subfamily

Probab=99.97  E-value=4.3e-30  Score=209.18  Aligned_cols=170  Identities=21%  Similarity=0.283  Sum_probs=143.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      +.||+|+|++|||||||++++..+.+...+.+|++..+. ..+.+++..+.+.+||++|++.+......+++++|++++|
T Consensus         1 ~~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv   79 (187)
T cd04129           1 RRKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYV-TDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIG   79 (187)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEE-EEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEE
Confidence            369999999999999999999988888888888776654 4667788889999999999999988888889999999999


Q ss_pred             EeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCcc-----chhchHHHHHHHHHHhCC-eEEEEcCCCCc
Q 041042          163 FDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPID-----LQWTIASQARAYAKALNA-TLFFSSATYNI  235 (268)
Q Consensus       163 ~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~-----~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~  235 (268)
                      ||+++.++|+.+. .|+..+....++.|+||||||+|+.......     .+.+..+++..+++..++ +||+|||++|.
T Consensus        80 ~~i~~~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~  159 (187)
T cd04129          80 FAVDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGE  159 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCC
Confidence            9999999999997 6999998877777778999999973211110     233446778899999985 89999999999


Q ss_pred             CHHHHHHHHHHHHhcCcc
Q 041042          236 NVNKILKFITAKLFDIPW  253 (268)
Q Consensus       236 ~i~~~f~~l~~~i~~~~~  253 (268)
                      ||+++|+++++.+.....
T Consensus       160 ~v~~~f~~l~~~~~~~~~  177 (187)
T cd04129         160 GVDDVFEAATRAALLVRK  177 (187)
T ss_pred             CHHHHHHHHHHHHhcccC
Confidence            999999999988876653

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).

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=9.8e-30  Score=211.54  Aligned_cols=167  Identities=22%  Similarity=0.341  Sum_probs=146.4

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      +...+||+++|++|||||||+++++.+.+...+.+|++.++....+..++..+.+++|||+|+++|..++..+++.++++
T Consensus         6 ~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~   85 (215)
T PTZ00132          6 EVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCA   85 (215)
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCEE
Confidence            55569999999999999999999999999889999999999888888899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      ++|||+++..+|..+..|+..+.....+.++++||||+|+.      ..... .+...+++..++.++++||++|.|+++
T Consensus        86 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~i~lv~nK~Dl~------~~~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~  158 (215)
T PTZ00132         86 IIMFDVTSRITYKNVPNWHRDIVRVCENIPIVLVGNKVDVK------DRQVK-ARQITFHRKKNLQYYDISAKSNYNFEK  158 (215)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccCc------cccCC-HHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            99999999999999999999998776665557899999962      11222 233467788899999999999999999


Q ss_pred             HHHHHHHHHhcCcc
Q 041042          240 ILKFITAKLFDIPW  253 (268)
Q Consensus       240 ~f~~l~~~i~~~~~  253 (268)
                      +|.+|++.+...+.
T Consensus       159 ~f~~ia~~l~~~p~  172 (215)
T PTZ00132        159 PFLWLARRLTNDPN  172 (215)
T ss_pred             HHHHHHHHHhhccc
Confidence            99999999987763

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=1.6e-29  Score=200.41  Aligned_cols=161  Identities=16%  Similarity=0.225  Sum_probs=139.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||++++....+...+.++++..+ .+...+++..+.+++|||+|++.+..++..+++.++++++||
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhE-EEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            5999999999999999999999999888888877554 466778889999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |++++.+|+.+..|+..+....  .+.|+++|+||+|+.   .  ......++...+++.++++++++||++|.|++++|
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~---~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  154 (164)
T cd04139          80 SITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLE---D--KRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAF  154 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccc---c--ccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHH
Confidence            9999999999999999888763  345567999999972   1  12234566777888889999999999999999999


Q ss_pred             HHHHHHHhc
Q 041042          242 KFITAKLFD  250 (268)
Q Consensus       242 ~~l~~~i~~  250 (268)
                      +.+.+.+.+
T Consensus       155 ~~l~~~~~~  163 (164)
T cd04139         155 YDLVREIRQ  163 (164)
T ss_pred             HHHHHHHHh
Confidence            999987753

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.97  E-value=1.4e-29  Score=207.80  Aligned_cols=150  Identities=19%  Similarity=0.239  Sum_probs=123.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC-----CeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-----GARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      +||+++|++|||||||+++|+++.|...+.+|+|.++..+.+.++     ++.+.+++|||+|+++|..++..||+++|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            599999999999999999999999999999999988887777764     578999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhC-------------------C-CCceEEEEeCCCCCCCCCccchhchHHHHHHH
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCN-------------------Q-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAY  218 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~-------------------~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~  218 (268)
                      +|+|||+++++||+++..|+.++....                   . +.|+||||||+||.... .............+
T Consensus        81 iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r-~~~~~~~~~~~~~i  159 (202)
T cd04102          81 IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEK-ESSGNLVLTARGFV  159 (202)
T ss_pred             EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhc-ccchHHHhhHhhhH
Confidence            999999999999999999999997642                   2 33446999999973110 00011112345677


Q ss_pred             HHHhCCeEEEEcCCCC
Q 041042          219 AKALNATLFFSSATYN  234 (268)
Q Consensus       219 ~~~~~~~~~~~Sa~~~  234 (268)
                      +++.+++.++.+++++
T Consensus       160 a~~~~~~~i~~~c~~~  175 (202)
T cd04102         160 AEQGNAEEINLNCTNG  175 (202)
T ss_pred             HHhcCCceEEEecCCc
Confidence            8999999999988754

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.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.97  E-value=2e-30  Score=206.85  Aligned_cols=154  Identities=17%  Similarity=0.123  Sum_probs=128.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDL  165 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~  165 (268)
                      |+++|++|||||||+++|.++.+...+.||+|.+.    ..+++..+.+++||++|+++|..++..+++++|++|+|||+
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~   77 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDS   77 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEEC
Confidence            79999999999999999999988888999998653    33456678899999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch--HHHHHHHHHHhCCeEEEEcCCC------CcCH
Q 041042          166 TSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI--ASQARAYAKALNATLFFSSATY------NINV  237 (268)
Q Consensus       166 ~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~Sa~~------~~~i  237 (268)
                      ++..+|..++.|+..+....++.|.++||||+|+.....   ....  ..++..++++.++.+++|||++      ++||
T Consensus        78 t~~~s~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~~~~---~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v  154 (164)
T cd04162          78 ADSERLPLARQELHQLLQHPPDLPLVVLANKQDLPAARS---VQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAV  154 (164)
T ss_pred             CCHHHHHHHHHHHHHHHhCCCCCcEEEEEeCcCCcCCCC---HHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHH
Confidence            999999999999998876555666689999999732110   0111  1245677778889999999888      9999


Q ss_pred             HHHHHHHHH
Q 041042          238 NKILKFITA  246 (268)
Q Consensus       238 ~~~f~~l~~  246 (268)
                      +++|+.++.
T Consensus       155 ~~~~~~~~~  163 (164)
T cd04162         155 KDLLSQLIN  163 (164)
T ss_pred             HHHHHHHhc
Confidence            999999864

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.97  E-value=5.9e-30  Score=204.92  Aligned_cols=153  Identities=18%  Similarity=0.183  Sum_probs=122.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|.+|||||||+++|..+.+. .+.||+|.++.  .+.  ...+.+++|||+|++++..++..+++++|++|+
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~--~~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~   82 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVE--TVT--YKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   82 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceE--EEE--ECCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            3589999999999999999999988774 56788887764  233  346789999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-----HhCCeEEEEcCCCC
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-----ALNATLFFSSATYN  234 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~  234 (268)
                      |||+++..+|+++..|+.++...  .++.|.+||+||+|+..       .+..+++.++++     ...+.++++||++|
T Consensus        83 v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~-------~~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g  155 (168)
T cd04149          83 VVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPD-------AMKPHEIQEKLGLTRIRDRNWYVQPSCATSG  155 (168)
T ss_pred             EEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc-------CCCHHHHHHHcCCCccCCCcEEEEEeeCCCC
Confidence            99999999999998888776543  23456679999999621       123445555442     22357899999999


Q ss_pred             cCHHHHHHHHHH
Q 041042          235 INVNKILKFITA  246 (268)
Q Consensus       235 ~~i~~~f~~l~~  246 (268)
                      .|++++|++|.+
T Consensus       156 ~gv~~~~~~l~~  167 (168)
T cd04149         156 DGLYEGLTWLSS  167 (168)
T ss_pred             CChHHHHHHHhc
Confidence            999999999864

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

>cd00154 Rab Rab family

Probab=99.97  E-value=2.9e-29  Score=197.08  Aligned_cols=157  Identities=23%  Similarity=0.456  Sum_probs=141.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|.+|||||||++++.++.+...+.+|.+.++....+..++..+.+.+||++|++.+...+..+++++|++++||
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~   80 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVY   80 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999998888899999998888888888899999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC-CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      |+++.++++.+..|+..+.... ...|.++|+||+|+.     .......+++.+++...+++++++||+++.|++++|+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-----~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  155 (159)
T cd00154          81 DITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLE-----DQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQ  155 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccc-----ccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHH
Confidence            9999999999999999998887 344557999999962     1233457888889999999999999999999999999


Q ss_pred             HHH
Q 041042          243 FIT  245 (268)
Q Consensus       243 ~l~  245 (268)
                      +|.
T Consensus       156 ~i~  158 (159)
T cd00154         156 SLA  158 (159)
T ss_pred             HHh
Confidence            986

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

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.97  E-value=8e-30  Score=205.46  Aligned_cols=155  Identities=19%  Similarity=0.223  Sum_probs=121.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||++++..+.+. .+.||+|.++..  +..  ..+.+++|||+|++++..++..|++++|++|+|
T Consensus        13 ~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~--~~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v   87 (175)
T smart00177       13 EMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVET--VTY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFV   87 (175)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceEE--EEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEEE
Confidence            589999999999999999999888774 578898877643  333  457899999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHH-----HHHhCCeEEEEcCCCCc
Q 041042          163 FDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAY-----AKALNATLFFSSATYNI  235 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~  235 (268)
                      ||++++++|+++..|+..+...  ..+.|++|||||+||....+       .+++...     ++...+.++++||++|.
T Consensus        88 ~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~-------~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~  160 (175)
T smart00177       88 VDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAMK-------AAEITEKLGLHSIRDRNWYIQPTCATSGD  160 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCCC-------HHHHHHHhCccccCCCcEEEEEeeCCCCC
Confidence            9999999999999888877543  23445579999999732111       1222111     12223457789999999


Q ss_pred             CHHHHHHHHHHHHh
Q 041042          236 NVNKILKFITAKLF  249 (268)
Q Consensus       236 ~i~~~f~~l~~~i~  249 (268)
                      |++++|++|.+.+.
T Consensus       161 gv~e~~~~l~~~~~  174 (175)
T smart00177      161 GLYEGLTWLSNNLK  174 (175)
T ss_pred             CHHHHHHHHHHHhc
Confidence            99999999987653

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).

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.97  E-value=1.2e-29  Score=201.21  Aligned_cols=152  Identities=20%  Similarity=0.235  Sum_probs=118.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|.+|||||||++++..+.|. .+.||+|.++.  .+..  ..+.+++|||+|++++..++..|++++|++|+||
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999888886 57888887653  3333  4678999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHh-C-CCCceEEEEeCCCCCCCCCccchhchHHHHHHHH----HHhCCeEEEEcCCCCcCH
Q 041042          164 DLTSRCTLKSVIRWYQQARKC-N-QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA----KALNATLFFSSATYNINV  237 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~-~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+++..+|+.+..|+..+... . ...|++||+||+|+...      ....+....+.    ...++.++++||++|+||
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~------~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv  149 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNA------MSAAEVTDKLGLHSLRNRNWYIQATCATSGDGL  149 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC------CCHHHHHHHhCccccCCCCEEEEEeeCCCCCCH
Confidence            999999999999888777543 2 24455799999997311      11112222221    223456789999999999


Q ss_pred             HHHHHHHHH
Q 041042          238 NKILKFITA  246 (268)
Q Consensus       238 ~~~f~~l~~  246 (268)
                      +++|++|.+
T Consensus       150 ~~~~~~l~~  158 (159)
T cd04150         150 YEGLDWLSN  158 (159)
T ss_pred             HHHHHHHhc
Confidence            999999864

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.97  E-value=4.9e-29  Score=199.00  Aligned_cols=162  Identities=18%  Similarity=0.251  Sum_probs=127.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|.++.|...+..+ ..++ .....+++..+.+++|||+|++.+...+..+++.+|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~-~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRV-LPEI-TIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCc-ccce-EeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            48999999999999999999999986654443 3232 344556778899999999999988888888899999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC--CeEEEEcCCCCcCHHHH
Q 041042          164 DLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN--ATLFFSSATYNINVNKI  240 (268)
Q Consensus       164 D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i~~~  240 (268)
                      |++++++|+.+. .|+..++...++.|+++|+||+|+.   +........+++..+++.+.  .++++|||++|.|++++
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~---~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~l  155 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLR---DGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEV  155 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhcc---cccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHH
Confidence            999999999985 7888888776666668999999973   11111112344444444443  37999999999999999


Q ss_pred             HHHHHHHHhc
Q 041042          241 LKFITAKLFD  250 (268)
Q Consensus       241 f~~l~~~i~~  250 (268)
                      |+.+.+.+.+
T Consensus       156 f~~~~~~~~~  165 (166)
T cd01893         156 FYYAQKAVLH  165 (166)
T ss_pred             HHHHHHHhcC
Confidence            9999988765

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.

>cd04158 ARD1 ARD1 subfamily

Probab=99.97  E-value=1.6e-29  Score=202.50  Aligned_cols=157  Identities=18%  Similarity=0.181  Sum_probs=127.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      ||+++|.+|||||||+++|.++.+. .+.+|+|.++.  .+.  ...+.+++|||+|++.+..++..+++++|++++|||
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~-~~~~T~~~~~~--~~~--~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM-QPIPTIGFNVE--TVE--YKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCceeEE--EEE--ECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            6899999999999999999998775 47888887764  233  345789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC------CeEEEEcCCCCcC
Q 041042          165 LTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN------ATLFFSSATYNIN  236 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~Sa~~~~~  236 (268)
                      ++++++|+++..|+..+.+..  .+.|++||+||+|+.       .....+++.++++..+      +.+++|||++|.|
T Consensus        76 ~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g  148 (169)
T cd04158          76 SSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVA-------GALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMG  148 (169)
T ss_pred             CCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcc-------cCCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCC
Confidence            999999999999998886542  234557999999962       1233555666654322      3678899999999


Q ss_pred             HHHHHHHHHHHHhcCcc
Q 041042          237 VNKILKFITAKLFDIPW  253 (268)
Q Consensus       237 i~~~f~~l~~~i~~~~~  253 (268)
                      |+++|++|++.+.+.++
T Consensus       149 v~~~f~~l~~~~~~~~~  165 (169)
T cd04158         149 LYEGLDWLSRQLVAAGV  165 (169)
T ss_pred             HHHHHHHHHHHHhhccc
Confidence            99999999998877654

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.97  E-value=7e-29  Score=198.35  Aligned_cols=162  Identities=21%  Similarity=0.301  Sum_probs=135.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|.+|||||||+++|.++.+...+.+|+... ....+..++..+.+++||++|++.+..+...+++.+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDN-YSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeee-eEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            599999999999999999999999877788876544 4456677889999999999999999888899999999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCcc------chhchHHHHHHHHHHhCC-eEEEEcCCCCc
Q 041042          164 DLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPID------LQWTIASQARAYAKALNA-TLFFSSATYNI  235 (268)
Q Consensus       164 D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~  235 (268)
                      |+++..+|.... .|+..+.....+.|.++||||+|+.......      ...+..+++.+++..+++ +|+++||++|.
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQE  159 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCC
Confidence            999999998876 6888888877767778999999974221110      012236778889999988 99999999999


Q ss_pred             CHHHHHHHHHH
Q 041042          236 NVNKILKFITA  246 (268)
Q Consensus       236 ~i~~~f~~l~~  246 (268)
                      |++++|++|++
T Consensus       160 gi~~l~~~i~~  170 (171)
T cd00157         160 GVKEVFEEAIR  170 (171)
T ss_pred             CHHHHHHHHhh
Confidence            99999999875

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=1.8e-29  Score=204.44  Aligned_cols=155  Identities=19%  Similarity=0.211  Sum_probs=122.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||++++..+.+. .+.||+|.++.  .+.  ...+.+++||++|+++++.++..||+++|++|+
T Consensus        16 ~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~--~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~   90 (181)
T PLN00223         16 KEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVE--YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIF   90 (181)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEE--ECCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            3589999999999999999999988875 57889887653  333  345789999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC--------eEEEEcC
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA--------TLFFSSA  231 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~Sa  231 (268)
                      |||+++.++|+++..|+..+...  .++.|++|||||+|+...       ...+   ++.+..++        .+++|||
T Consensus        91 V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~-------~~~~---~~~~~l~l~~~~~~~~~~~~~Sa  160 (181)
T PLN00223         91 VVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA-------MNAA---EITDKLGLHSLRQRHWYIQSTCA  160 (181)
T ss_pred             EEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC-------CCHH---HHHHHhCccccCCCceEEEeccC
Confidence            99999999999998887776432  234555799999997321       1122   23333332        3567999


Q ss_pred             CCCcCHHHHHHHHHHHHhcC
Q 041042          232 TYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ++|+||+++|++|++.+.++
T Consensus       161 ~~g~gv~e~~~~l~~~~~~~  180 (181)
T PLN00223        161 TSGEGLYEGLDWLSNNIANK  180 (181)
T ss_pred             CCCCCHHHHHHHHHHHHhhc
Confidence            99999999999999887654

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.97  E-value=8.6e-29  Score=203.31  Aligned_cols=164  Identities=17%  Similarity=0.199  Sum_probs=135.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      ||+++|++|||||||+++|+++.+...+.+|++ ++....+.+.+..+.+++||++|++.|..++..++.++|++|+|||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d   79 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYA   79 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEE
Confidence            799999999999999999999999888888875 4556678888888999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-HhCCeEEEEcCCCCcCHHHHH
Q 041042          165 LTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-ALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      +++.++|+.+..|+..+.....  +.|.|||+||+|+.   .. ......++..+... ..+++++++||++|.|++++|
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~---~~-~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~  155 (198)
T cd04147          80 VDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSL---EE-ERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVF  155 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccc---cc-cccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHH
Confidence            9999999999999998877643  45557999999973   21 12222333444433 456889999999999999999


Q ss_pred             HHHHHHHhcCcc
Q 041042          242 KFITAKLFDIPW  253 (268)
Q Consensus       242 ~~l~~~i~~~~~  253 (268)
                      +++++.+....+
T Consensus       156 ~~l~~~~~~~~~  167 (198)
T cd04147         156 KELLRQANLPYN  167 (198)
T ss_pred             HHHHHHhhcccc
Confidence            999998775554

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.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.97  E-value=4e-29  Score=202.78  Aligned_cols=167  Identities=16%  Similarity=0.162  Sum_probs=133.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEE-CCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV-RGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      .+||+++|.+|||||||++++..+.+.. +.+|+|.++....+.+ ++..+.+++|||+|++++..++..+++++|++|+
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~   81 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVN-TVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVF   81 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCC-cCCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEE
Confidence            5899999999999999999999988864 4788887776666655 4467899999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH------HhCCeEEEEcCCC
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK------ALNATLFFSSATY  233 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~Sa~~  233 (268)
                      |||+++.++++.+..|+.++....  .+.|.+||+||+|+..       ....+++..+..      ..+++++++||++
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~  154 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPN-------ALSVSEVEKLLALHELSASTPWHVQPACAII  154 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccc-------cCCHHHHHHHhCccccCCCCceEEEEeeccc
Confidence            999999999999999988887653  3455579999999621       112233333332      1235688999999


Q ss_pred             CcCHHHHHHHHHHHHhcCccchhc
Q 041042          234 NINVNKILKFITAKLFDIPWTLER  257 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~~~~~~~  257 (268)
                      |.|++++|++|++.+.+.....++
T Consensus       155 ~~gi~~l~~~l~~~l~~~~~~~~~  178 (183)
T cd04152         155 GEGLQEGLEKLYEMILKRRKMLRQ  178 (183)
T ss_pred             CCCHHHHHHHHHHHHHHHHhhhhh
Confidence            999999999999999776655444

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.

>cd00876 Ras Ras family

Probab=99.97  E-value=1e-28  Score=194.90  Aligned_cols=158  Identities=18%  Similarity=0.310  Sum_probs=138.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      ||+++|++|||||||++++.+..+...+.++.+ +...+.+.+++..+.+++||++|++.+..+...+++.+|++++|||
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   79 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYS   79 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            799999999999999999999888888888877 5556777788888999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          165 LTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      +++.++++++..|+..+.....  ..|.++|+||+|+.   .  ......+++..+++..+++++++||++|.|++++|+
T Consensus        80 ~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~---~--~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~  154 (160)
T cd00876          80 ITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLE---N--ERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFK  154 (160)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCccc---c--cceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHH
Confidence            9999999999999999887754  45557999999972   1  233456788889999999999999999999999999


Q ss_pred             HHHHHH
Q 041042          243 FITAKL  248 (268)
Q Consensus       243 ~l~~~i  248 (268)
                      +|++.+
T Consensus       155 ~l~~~i  160 (160)
T cd00876         155 LLVREI  160 (160)
T ss_pred             HHHhhC
Confidence            998753

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

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.97  E-value=2.5e-31  Score=205.40  Aligned_cols=169  Identities=18%  Similarity=0.357  Sum_probs=155.8

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      .....+|++|+|..+|||||+|++|+.+.|..+|..|+|++|....+.++++.+.+.+|||+||+.|..+...||++|.+
T Consensus        16 d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa   95 (246)
T KOG4252|consen   16 DYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQA   95 (246)
T ss_pred             hhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccc
Confidence            35567999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      .++||+.+|+.||+.+..|++.+.......|-++|-||+||   +  +......++++.+++...+.++.+|++...||.
T Consensus        96 ~vLVFSTTDr~SFea~~~w~~kv~~e~~~IPtV~vqNKIDl---v--eds~~~~~evE~lak~l~~RlyRtSvked~NV~  170 (246)
T KOG4252|consen   96 SVLVFSTTDRYSFEATLEWYNKVQKETERIPTVFVQNKIDL---V--EDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNVM  170 (246)
T ss_pred             eEEEEecccHHHHHHHHHHHHHHHHHhccCCeEEeeccchh---h--HhhhcchHHHHHHHHHhhhhhhhhhhhhhhhhH
Confidence            99999999999999999999999988877777999999998   2  223455889999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|.+|++.+.++.
T Consensus       171 ~vF~YLaeK~~q~~  184 (246)
T KOG4252|consen  171 HVFAYLAEKLTQQK  184 (246)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998877664

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.96  E-value=3.8e-29  Score=202.78  Aligned_cols=157  Identities=17%  Similarity=0.201  Sum_probs=121.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||++++..+.+.. +.||+|.++.  .+.  ...+.+++|||+|++++..++..|++++|++|+|
T Consensus        17 ~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~--~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v   91 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVE--YKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFV   91 (182)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEE--ECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEE
Confidence            5899999999999999999998888854 7788887654  333  3457899999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHH-----HHHHhCCeEEEEcCCCCc
Q 041042          163 FDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARA-----YAKALNATLFFSSATYNI  235 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~  235 (268)
                      ||+++.++|+.+..|+..+...  ..+.|.+||+||.|+....       ..+++..     .++...+.++++||++|.
T Consensus        92 ~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~-------~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~  164 (182)
T PTZ00133         92 VDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAM-------STTEVTEKLGLHSVRQRNWYIQGCCATTAQ  164 (182)
T ss_pred             EeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCC-------CHHHHHHHhCCCcccCCcEEEEeeeCCCCC
Confidence            9999999999998877776432  2344557999999963211       1111111     122223456789999999


Q ss_pred             CHHHHHHHHHHHHhcC
Q 041042          236 NVNKILKFITAKLFDI  251 (268)
Q Consensus       236 ~i~~~f~~l~~~i~~~  251 (268)
                      |++++|++|.+.+..+
T Consensus       165 gv~e~~~~l~~~i~~~  180 (182)
T PTZ00133        165 GLYEGLDWLSANIKKS  180 (182)
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999999999877654

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.96  E-value=3.7e-28  Score=196.25  Aligned_cols=165  Identities=18%  Similarity=0.219  Sum_probs=140.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      .||+++|.+|||||||++++.+..+...+.+|++..+ ...+.+++..+.+++|||+|+++|..++..++..++++++||
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVY   80 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEE
Confidence            6999999999999999999999998888888877655 466777888889999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |+++..+|+.+..|+..+.+..  .+.|.|+|+||+|+.    . .+....++...+++.++++++++||++|.|+.++|
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~----~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~  155 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLH----T-QRQVSTEEGKELAESWGAAFLESSARENENVEEAF  155 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhh----h-cCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            9999999999999988887653  344668999999962    1 12233556778888889999999999999999999


Q ss_pred             HHHHHHHhcCccc
Q 041042          242 KFITAKLFDIPWT  254 (268)
Q Consensus       242 ~~l~~~i~~~~~~  254 (268)
                      .++.+.+...+..
T Consensus       156 ~~l~~~~~~~~~~  168 (180)
T cd04137         156 ELLIEEIEKVENP  168 (180)
T ss_pred             HHHHHHHHHhcCC
Confidence            9999988876543

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.96  E-value=2e-28  Score=210.87  Aligned_cols=143  Identities=19%  Similarity=0.298  Sum_probs=122.2

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECC-------------eEEEEEEEeCCCcccc
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRG-------------ARISYSIWEVTGDAKA  145 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-------------~~~~l~i~Dt~G~~~~  145 (268)
                      +....+||+|+|+.|||||||+++|+++.|...+.+|+|.++..+.+.+++             +.+.++||||+|+++|
T Consensus        17 ~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErf   96 (334)
T PLN00023         17 PPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERY   96 (334)
T ss_pred             CCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhh
Confidence            355579999999999999999999999999989999999999878777652             5789999999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCC-------------CCceEEEEeCCCCCCCCCccc-hh--
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ-------------TAIPIIIGTKFDDFIQLPIDL-QW--  209 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~-------------~~~~ilvgnK~Dl~~~~~~~~-~~--  209 (268)
                      ..++..||++++++|+|||+++.+||+++..|++.+.....             +.++||||||+||.   .... +.  
T Consensus        97 rsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~---~~~~~r~~s  173 (334)
T PLN00023         97 KDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIA---PKEGTRGSS  173 (334)
T ss_pred             hhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccc---ccccccccc
Confidence            99999999999999999999999999999999999987631             23447999999973   1111 11  


Q ss_pred             -chHHHHHHHHHHhCC
Q 041042          210 -TIASQARAYAKALNA  224 (268)
Q Consensus       210 -~~~~~~~~~~~~~~~  224 (268)
                       +..+++++||+++++
T Consensus       174 ~~~~e~a~~~A~~~g~  189 (334)
T PLN00023        174 GNLVDAARQWVEKQGL  189 (334)
T ss_pred             cccHHHHHHHHHHcCC
Confidence             247899999999985

>cd04154 Arl2 Arl2 subfamily

Probab=99.96  E-value=2.8e-28  Score=195.94  Aligned_cols=155  Identities=20%  Similarity=0.227  Sum_probs=123.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.+..+ ..+.+|+|...  ..+.++  .+.+++|||+|++.++.++..+++++|++
T Consensus        11 ~~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~~--~~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~~   85 (173)
T cd04154          11 KEREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGFQI--KTLEYE--GYKLNIWDVGGQKTLRPYWRNYFESTDAL   85 (173)
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccccce--EEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEE
Confidence            34468999999999999999999998855 46778887443  445555  46789999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-----HhCCeEEEEcCC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-----ALNATLFFSSAT  232 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~  232 (268)
                      ++|||+++..+|+++..|+..+...  ..+.|++||+||+|+.+.       ...+++.++++     ..+++++++||+
T Consensus        86 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  158 (173)
T cd04154          86 IWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGA-------LSEEEIREALELDKISSHHWRIQPCSAV  158 (173)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccC-------CCHHHHHHHhCccccCCCceEEEeccCC
Confidence            9999999999999999888887543  245566799999997321       12344444442     346789999999


Q ss_pred             CCcCHHHHHHHHHH
Q 041042          233 YNINVNKILKFITA  246 (268)
Q Consensus       233 ~~~~i~~~f~~l~~  246 (268)
                      +|.|++++|++++.
T Consensus       159 ~g~gi~~l~~~l~~  172 (173)
T cd04154         159 TGEGLLQGIDWLVD  172 (173)
T ss_pred             CCcCHHHHHHHHhc
Confidence            99999999999864

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.96  E-value=2.4e-28  Score=193.59  Aligned_cols=154  Identities=18%  Similarity=0.213  Sum_probs=117.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC-CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE-KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +|+++|++|||||||+++|.+.. +...+.+|+|..+.  .+  ....+.+++|||+|++++..++..+++++|++|+||
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~--~~--~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVE--SF--EKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceE--EE--EECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            58999999999999999999876 45678888886543  22  234677999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHH--HHhCCeEEEEcCCCCcCH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA--KALNATLFFSSATYNINV  237 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+++..+|..+..|+..+....    .+.|.+||+||+|+...    .......+...+.  ....+.++++||++|.|+
T Consensus        77 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~----~~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv  152 (162)
T cd04157          77 DSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDA----LTAVKITQLLGLENIKDKPWHIFASNALTGEGL  152 (162)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCC----CCHHHHHHHhCCccccCceEEEEEeeCCCCCch
Confidence            9999999999999988876532    24555799999997311    1111111111122  122346899999999999


Q ss_pred             HHHHHHHHH
Q 041042          238 NKILKFITA  246 (268)
Q Consensus       238 ~~~f~~l~~  246 (268)
                      +++|++|.+
T Consensus       153 ~~~~~~l~~  161 (162)
T cd04157         153 DEGVQWLQA  161 (162)
T ss_pred             HHHHHHHhc
Confidence            999999864

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.96  E-value=6.3e-28  Score=191.00  Aligned_cols=155  Identities=17%  Similarity=0.228  Sum_probs=119.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      ||+++|++|||||||+++|.++.+. .+.+|++.++.  .+..+ ..+.+.+|||+|++.+..++..+++++|++|+|||
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~-~~~~t~~~~~~--~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D   76 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELV-TTIPTVGFNVE--MLQLE-KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD   76 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcc-cccCccCcceE--EEEeC-CceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEE
Confidence            6899999999999999999999875 45678876543  33333 45789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHH--HHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          165 LTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQ--ARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      +++..++..+..|+..+.+..  .+.|.+||+||+|+....   ........  ...++...++++++|||++|+|++++
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~  153 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGAL---TAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEA  153 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCc---CHHHHHHHcCCcccCCCCcEEEEecccccCCChHHH
Confidence            999999999998888876542  345567999999973211   11111111  12334445567999999999999999


Q ss_pred             HHHHHH
Q 041042          241 LKFITA  246 (268)
Q Consensus       241 f~~l~~  246 (268)
                      |++|.+
T Consensus       154 ~~~i~~  159 (160)
T cd04156         154 FRKLAS  159 (160)
T ss_pred             HHHHhc
Confidence            999864

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

>PTZ00099 rab6; Provisional

Probab=99.95  E-value=4e-27  Score=189.70  Aligned_cols=144  Identities=22%  Similarity=0.366  Sum_probs=126.4

Q ss_pred             CCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhC
Q 041042          106 DEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN  185 (268)
Q Consensus       106 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~  185 (268)
                      +.|.+.+.+|+|.++..+.+.+++..+.++||||+|+++|..++..|+++||++|+|||+++++||+.+..|+..+....
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            46788899999999998999999999999999999999999999999999999999999999999999999999987765


Q ss_pred             C-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHhcCccc
Q 041042          186 Q-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWT  254 (268)
Q Consensus       186 ~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~~~  254 (268)
                      . ..|+||||||+||.     ..+.+..+++..+++.+++.|++|||++|.||+++|++|++.+.+.+..
T Consensus        83 ~~~~piilVgNK~DL~-----~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~~~  147 (176)
T PTZ00099         83 GKDVIIALVGNKTDLG-----DLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLDNS  147 (176)
T ss_pred             CCCCeEEEEEECcccc-----cccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcccc
Confidence            3 44447999999973     1233456778889999999999999999999999999999999876533

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.95  E-value=2e-27  Score=191.21  Aligned_cols=153  Identities=17%  Similarity=0.230  Sum_probs=120.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|.+|||||||++++..+.+.. +.+|++.++.  .+.++  .+.+.+||++|++.+...+..+++++|++++|
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V   89 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVE--EIVYK--NIRFLMWDIGGQESLRSSWNTYYTNTDAVILV   89 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceE--EEEEC--CeEEEEEECCCCHHHHHHHHHHhhcCCEEEEE
Confidence            5899999999999999999999888764 6788887654  33333  57799999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHH----HHHhCCeEEEEcCCCCcC
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAY----AKALNATLFFSSATYNIN  236 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~Sa~~~~~  236 (268)
                      ||+++.++|..+..|+..+....  .+.|.+||+||+|+....+      ..+..+.+    ++..++++++|||++|.|
T Consensus        90 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~~------~~~i~~~l~~~~~~~~~~~~~~~SA~~g~g  163 (174)
T cd04153          90 IDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAMT------PAEISESLGLTSIRDHTWHIQGCCALTGEG  163 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCCC------HHHHHHHhCcccccCCceEEEecccCCCCC
Confidence            99999999999888777775542  3455579999999732111      11112222    234567899999999999


Q ss_pred             HHHHHHHHHH
Q 041042          237 VNKILKFITA  246 (268)
Q Consensus       237 i~~~f~~l~~  246 (268)
                      |+++|++|.+
T Consensus       164 i~e~~~~l~~  173 (174)
T cd04153         164 LPEGLDWIAS  173 (174)
T ss_pred             HHHHHHHHhc
Confidence            9999999874

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.95  E-value=2.2e-27  Score=187.84  Aligned_cols=154  Identities=19%  Similarity=0.225  Sum_probs=114.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      ||+++|++|||||||++++..+.+. .+.+|++.++.  .+.  +..+.+++|||+|++.+..++..+++.+|++|+|||
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~~t~~~~~~--~~~--~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTIPTIGFNVE--TVT--YKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcCCccCcCeE--EEE--ECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            6899999999999999999888775 46778876654  333  345779999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHH-h-CCCCceEEEEeCCCCCCCCCccchhchHHHH-HHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          165 LTSRCTLKSVIRWYQQARK-C-NQTAIPIIIGTKFDDFIQLPIDLQWTIASQA-RAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~-~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      +++..++.....|+..+.+ . ..+.|.+||+||+|+.+..   ......+.. .......+.+++++||++|.|++++|
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~---~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  152 (158)
T cd04151          76 STDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL---SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGM  152 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC---CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHH
Confidence            9999998877766655433 2 2345667999999973111   011111110 01112234579999999999999999


Q ss_pred             HHHHH
Q 041042          242 KFITA  246 (268)
Q Consensus       242 ~~l~~  246 (268)
                      ++|++
T Consensus       153 ~~l~~  157 (158)
T cd04151         153 DWLVN  157 (158)
T ss_pred             HHHhc
Confidence            99875

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.95  E-value=5.5e-27  Score=187.46  Aligned_cols=155  Identities=14%  Similarity=0.144  Sum_probs=120.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      +|+++|.+|||||||+++|.++ +...+.+|+|.+.  ..+..+  .+.+++||++|++.++.++..|++++|++|+|||
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~~--~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D   75 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFTP--TKLRLD--KYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVD   75 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccceE--EEEEEC--CEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEE
Confidence            4899999999999999999977 7778889988653  344443  5778999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhch-HHHHHHHHHHhC--CeEEEEcCCCC-----
Q 041042          165 LTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTI-ASQARAYAKALN--ATLFFSSATYN-----  234 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~~~~~~--~~~~~~Sa~~~-----  234 (268)
                      +++..+|+++..|+..+....  .+.|++||+||+|+......  .... ...+..++++.+  +.+++|||++|     
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~--~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~  153 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLG--ADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKI  153 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCH--HHHHHhcCcccccCCCCceEEEEEeEceeCCCCcc
Confidence            999999999999999887653  34555799999997322111  0111 112334454443  56777999998     


Q ss_pred             -cCHHHHHHHHHH
Q 041042          235 -INVNKILKFITA  246 (268)
Q Consensus       235 -~~i~~~f~~l~~  246 (268)
                       .|+++.|+||.+
T Consensus       154 ~~g~~~~~~wl~~  166 (167)
T cd04161         154 DPSIVEGLRWLLA  166 (167)
T ss_pred             ccCHHHHHHHHhc
Confidence             899999999974

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.95  E-value=2.7e-26  Score=187.02  Aligned_cols=154  Identities=16%  Similarity=0.158  Sum_probs=123.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||++++.++.+. .+.+|++...  ..+.+++  +.+++||++|++.+..++..+++++|++++
T Consensus        18 ~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~--~~i~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~iil   92 (190)
T cd00879          18 KEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTS--EELTIGN--IKFKTFDLGGHEQARRLWKDYFPEVDGIVF   92 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcce--EEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            4689999999999999999999998874 5777777543  4455554  568899999999999899999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH----------------hC
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA----------------LN  223 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~----------------~~  223 (268)
                      |+|+++.++|+....|+..+....  .+.|++||+||+|+..       .+..++++++++.                ..
T Consensus        93 V~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (190)
T cd00879          93 LVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG-------AVSEEELRQALGLYGTTTGKGVSLKVSGIRP  165 (190)
T ss_pred             EEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC-------CcCHHHHHHHhCcccccccccccccccCcee
Confidence            999999999999888888876542  3456679999999721       2234555555542                23


Q ss_pred             CeEEEEcCCCCcCHHHHHHHHHHH
Q 041042          224 ATLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       224 ~~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      +.+++|||++|+|++++|++|.+.
T Consensus       166 ~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         166 IEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             EEEEEeEecCCCChHHHHHHHHhh
Confidence            568999999999999999999865

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.95  E-value=6.6e-27  Score=186.42  Aligned_cols=151  Identities=18%  Similarity=0.212  Sum_probs=117.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC------CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE------KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~------~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      +|+++|++|||||||++++.+..      +...+.+|++.++.  .+.++  ...+++|||+|++.+..++..+++++|+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   76 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIG--TIEVG--NARLKFWDLGGQESLRSLWDKYYAECHA   76 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceE--EEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCE
Confidence            58999999999999999997642      23355677776664  34444  4678999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-------hCCeEEEE
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-------LNATLFFS  229 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~  229 (268)
                      +++|+|+++.+++..+..|+..+.+..  .+.|.+||+||+|+...       ...++...+.+.       .+++++++
T Consensus        77 ~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (167)
T cd04160          77 IIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA-------LSVEEIKEVFQDKAEEIGRRDCLVLPV  149 (167)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC-------CCHHHHHHHhccccccccCCceEEEEe
Confidence            999999999999999998888876642  34566799999997321       122333333322       34689999


Q ss_pred             cCCCCcCHHHHHHHHHH
Q 041042          230 SATYNINVNKILKFITA  246 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~  246 (268)
                      ||++|.|++++|++|++
T Consensus       150 Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         150 SALEGTGVREGIEWLVE  166 (167)
T ss_pred             eCCCCcCHHHHHHHHhc
Confidence            99999999999999875

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.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.94  E-value=2.7e-26  Score=181.29  Aligned_cols=150  Identities=19%  Similarity=0.184  Sum_probs=118.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      ||+++|.+|||||||++++.+..+ ..+.+|++....  .+.++  .+.+.+||++|++.+...+..+++.+|++++|||
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D   75 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNVE--TVEYK--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVD   75 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcceE--EEEEC--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEE
Confidence            799999999999999999999884 566777776553  33343  4679999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHH-----HHHhCCeEEEEcCCCCcCH
Q 041042          165 LTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAY-----AKALNATLFFSSATYNINV  237 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~i  237 (268)
                      +++++++..+..|+..+....  .+.|.++|+||+|+..   ..    ..++..+.     +....++++++||++|.|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~---~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv  148 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPG---AL----SVSELIEKLGLEKILGRRWHIQPCSAVTGDGL  148 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcc---cc----CHHHHHHhhChhhccCCcEEEEEeeCCCCCCH
Confidence            999999999998888876642  3455579999999731   11    11222222     2234568999999999999


Q ss_pred             HHHHHHHHH
Q 041042          238 NKILKFITA  246 (268)
Q Consensus       238 ~~~f~~l~~  246 (268)
                      +++|++|..
T Consensus       149 ~~~~~~l~~  157 (158)
T cd00878         149 DEGLDWLLQ  157 (158)
T ss_pred             HHHHHHHhh
Confidence            999999875

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.93  E-value=2.4e-25  Score=174.81  Aligned_cols=155  Identities=17%  Similarity=0.257  Sum_probs=119.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      .|+++|.+|||||||++++.+.++...+.+|++.++..  +..++  +.+.+||++|++.+..++..+++.+|++++|+|
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~~~--~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d   76 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTKGN--VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVD   76 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEECC--EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEE
Confidence            37999999999999999999999999999999877642  33333  789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHH-HHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          165 LTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQA-RAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      +++.+++.....|+..+....  .+.|.++|+||+|+.+   ........+.. ........++++++||++|.|++++|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (159)
T cd04159          77 AADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPG---ALSVDELIEQMNLKSITDREVSCYSISCKEKTNIDIVL  153 (159)
T ss_pred             CCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC---CcCHHHHHHHhCcccccCCceEEEEEEeccCCChHHHH
Confidence            999999998888877765432  3445579999999631   11111111110 01112234688999999999999999


Q ss_pred             HHHHH
Q 041042          242 KFITA  246 (268)
Q Consensus       242 ~~l~~  246 (268)
                      ++|.+
T Consensus       154 ~~l~~  158 (159)
T cd04159         154 DWLIK  158 (159)
T ss_pred             HHHhh
Confidence            99875

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.93  E-value=5.9e-25  Score=182.97  Aligned_cols=170  Identities=25%  Similarity=0.338  Sum_probs=136.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||+++|.++.+...+.+|++..+........+..+++.+|||+|+++|+.++..|+.+++++++|
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~   84 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIV   84 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEE
Confidence            49999999999999999999999999999999999888888877777789999999999999999999999999999999


Q ss_pred             EeCCC-hhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccc-------hhchHHHHHHHHHHh---CCeEEEEc
Q 041042          163 FDLTS-RCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDL-------QWTIASQARAYAKAL---NATLFFSS  230 (268)
Q Consensus       163 ~D~~~-~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~-------~~~~~~~~~~~~~~~---~~~~~~~S  230 (268)
                      ||.++ ..+++....|...+....+ ..++++|+||+||........       ...........+...   ...++++|
T Consensus        85 ~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  164 (219)
T COG1100          85 YDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETS  164 (219)
T ss_pred             EecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEee
Confidence            99999 5566677799999988885 456679999999742211000       111222222222222   33489999


Q ss_pred             CC--CCcCHHHHHHHHHHHHhcCc
Q 041042          231 AT--YNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       231 a~--~~~~i~~~f~~l~~~i~~~~  252 (268)
                      ++  ++.+|.++|..+...+.+..
T Consensus       165 ~~~~~~~~v~~~~~~~~~~~~~~~  188 (219)
T COG1100         165 AKSLTGPNVNELFKELLRKLLEEI  188 (219)
T ss_pred             cccCCCcCHHHHHHHHHHHHHHhh
Confidence            99  99999999999999887654

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.93  E-value=3.1e-25  Score=180.14  Aligned_cols=154  Identities=17%  Similarity=0.207  Sum_probs=118.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|.+|||||||++++.++.+. .+.+|.+.+.  ..+.++  .+.+.+||++|++.++.++..|++++|++|+
T Consensus        16 ~~~~i~ivG~~~~GKTsli~~l~~~~~~-~~~~t~~~~~--~~~~~~--~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~   90 (184)
T smart00178       16 KHAKILFLGLDNAGKTTLLHMLKNDRLA-QHQPTQHPTS--EELAIG--NIKFTTFDLGGHQQARRLWKDYFPEVNGIVY   90 (184)
T ss_pred             ccCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccccce--EEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEEE
Confidence            3589999999999999999999998764 4566666543  333444  3678899999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH------------HhCCeEE
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK------------ALNATLF  227 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~  227 (268)
                      |+|+++++++.....|+..+....  .+.|.+||+||+|+...       ...+++.+...            .....++
T Consensus        91 vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~-------~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~  163 (184)
T smart00178       91 LVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYA-------ASEDELRYALGLTNTTGSKGKVGVRPLEVF  163 (184)
T ss_pred             EEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCC-------CCHHHHHHHcCCCcccccccccCCceeEEE
Confidence            999999999999988888775432  34566799999997321       12233322221            0234589


Q ss_pred             EEcCCCCcCHHHHHHHHHHH
Q 041042          228 FSSATYNINVNKILKFITAK  247 (268)
Q Consensus       228 ~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      +|||++|.|+++++++|.++
T Consensus       164 ~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      164 MCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             EeecccCCChHHHHHHHHhh
Confidence            99999999999999999865

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd01890 LepA LepA subfamily

Probab=99.93  E-value=4.4e-25  Score=177.92  Aligned_cols=154  Identities=13%  Similarity=0.196  Sum_probs=116.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC-------CCCCCCCC------cceeeEEEEEEE-----CCeEEEEEEEeCCCccccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE-------KEQGGSPG------EGLNMMDKTLLV-----RGARISYSIWEVTGDAKAQ  146 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~-------~~~~~~~t------~~~~~~~~~~~~-----~~~~~~l~i~Dt~G~~~~~  146 (268)
                      +|+++|+++||||||+++|++..       +...+.++      .|.++....+..     ++..+.+++|||+|++.|.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            58999999999999999998742       22233333      244555444333     6678899999999999999


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe-
Q 041042          147 DHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT-  225 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-  225 (268)
                      .++..+++++|++|+|||+++..+++....|.....   .+.+.++|+||+|+.    ..   ...+...++++.++++ 
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~---~~~~iiiv~NK~Dl~----~~---~~~~~~~~~~~~~~~~~  151 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLALE---NNLEIIPVINKIDLP----SA---DPERVKQQIEDVLGLDP  151 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHH---cCCCEEEEEECCCCC----cC---CHHHHHHHHHHHhCCCc
Confidence            999999999999999999999877777776654332   245567999999962    11   1123345666666764 


Q ss_pred             --EEEEcCCCCcCHHHHHHHHHHHH
Q 041042          226 --LFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       226 --~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                        ++++||++|.|++++|++|.+.+
T Consensus       152 ~~~~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         152 SEAILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             ccEEEeeccCCCCHHHHHHHHHhhC
Confidence              89999999999999999998875

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.93  E-value=1.1e-25  Score=174.81  Aligned_cols=134  Identities=14%  Similarity=0.121  Sum_probs=102.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc-----ccccchhhhhcCCcEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA-----KAQDHLPVACKDSIAI  159 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~-----~~~~~~~~~~~~a~~v  159 (268)
                      ||+++|++|||||||+++|.++.+  .+.+|++.++.       +     .+|||+|+.     .|..+.. .++++|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~--~~~~t~~~~~~-------~-----~~iDt~G~~~~~~~~~~~~~~-~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEI--LYKKTQAVEYN-------D-----GAIDTPGEYVENRRLYSALIV-TAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCcc--ccccceeEEEc-------C-----eeecCchhhhhhHHHHHHHHH-HhhcCCEE
Confidence            899999999999999999998875  34555554432       1     579999972     3444444 48999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..++.. ..|.+.+     ..|.|+|+||+|+.   +   .....+++.++++..+. +++++||++|.|++
T Consensus        67 ilv~d~~~~~s~~~-~~~~~~~-----~~p~ilv~NK~Dl~---~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  134 (142)
T TIGR02528        67 ALVQSATDPESRFP-PGFASIF-----VKPVIGLVTKIDLA---E---ADVDIERAKELLETAGAEPIFEISSVDEQGLE  134 (142)
T ss_pred             EEEecCCCCCcCCC-hhHHHhc-----cCCeEEEEEeeccC---C---cccCHHHHHHHHHHcCCCcEEEEecCCCCCHH
Confidence            99999999999865 3454432     23667899999972   1   22335667788888776 79999999999999


Q ss_pred             HHHHHHH
Q 041042          239 KILKFIT  245 (268)
Q Consensus       239 ~~f~~l~  245 (268)
                      ++|+++.
T Consensus       135 ~l~~~l~  141 (142)
T TIGR02528       135 ALVDYLN  141 (142)
T ss_pred             HHHHHHh
Confidence            9999874

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.

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.93  E-value=1.6e-24  Score=165.47  Aligned_cols=164  Identities=19%  Similarity=0.238  Sum_probs=132.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ..++++|.++|..|+||||++++|.+.. .+...||.|.+.  +++.++  .+++++||.+||...++.|+.||..+|++
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~gf~I--ktl~~~--~~~L~iwDvGGq~~lr~~W~nYfestdgl   87 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLGFQI--KTLEYK--GYTLNIWDVGGQKTLRSYWKNYFESTDGL   87 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccceee--EEEEec--ceEEEEEEcCCcchhHHHHHHhhhccCeE
Confidence            4458999999999999999999998877 467788888554  555544  46699999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHH--hCCCCceEEEEeCCCCCCCCCccchhch-HHHHHHHHHHhCCeEEEEcCCCCcC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARK--CNQTAIPIIIGTKFDDFIQLPIDLQWTI-ASQARAYAKALNATLFFSSATYNIN  236 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~--~~~~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~Sa~~~~~  236 (268)
                      |.|+|.+|+..|++....+..+..  .-...+++|++||.|+...+..+  ... .-+..++++...++.+.|||.+|++
T Consensus        88 IwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~--~i~~~~~L~~l~ks~~~~l~~cs~~tge~  165 (185)
T KOG0073|consen   88 IWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLE--EISKALDLEELAKSHHWRLVKCSAVTGED  165 (185)
T ss_pred             EEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHH--HHHHhhCHHHhccccCceEEEEecccccc
Confidence            999999999999988866666533  22356788999999974333321  111 2445667788899999999999999


Q ss_pred             HHHHHHHHHHHHhc
Q 041042          237 VNKILKFITAKLFD  250 (268)
Q Consensus       237 i~~~f~~l~~~i~~  250 (268)
                      +.+-++|++..+..
T Consensus       166 l~~gidWL~~~l~~  179 (185)
T KOG0073|consen  166 LLEGIDWLCDDLMS  179 (185)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999998876

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

Probab=99.93  E-value=1.7e-24  Score=172.60  Aligned_cols=156  Identities=13%  Similarity=0.186  Sum_probs=107.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc---------hhhhhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH---------LPVACKD  155 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~---------~~~~~~~  155 (268)
                      +|+++|.+|||||||+++|.+..+.....+....+.....+  ....+.+++|||+|+......         .......
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~--~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~   79 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHF--DYKYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHL   79 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEEEE--ccCceEEEEEECCCcCCccccCCchHHHHHHHHHHhc
Confidence            79999999999999999999987643322211111211122  223477999999998431110         0011123


Q ss_pred             CcEEEEEEeCCChhhH--HHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCC
Q 041042          156 SIAILFMFDLTSRCTL--KSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATY  233 (268)
Q Consensus       156 a~~vilv~D~~~~~s~--~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  233 (268)
                      +|++|+|+|+++..++  +....|++.+.....+.|+|+|+||+|+.   .   ..... +..++++..+.++++|||++
T Consensus        80 ~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvilv~NK~Dl~---~---~~~~~-~~~~~~~~~~~~~~~~Sa~~  152 (168)
T cd01897          80 RAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKPVIVVLNKIDLL---T---FEDLS-EIEEEEELEGEEVLKISTLT  152 (168)
T ss_pred             cCcEEEEEeCCcccccchHHHHHHHHHHHhhcCcCCeEEEEEccccC---c---hhhHH-HHHHhhhhccCceEEEEecc
Confidence            6899999999987654  66678888887665566668999999972   1   11111 25566666778999999999


Q ss_pred             CcCHHHHHHHHHHHHh
Q 041042          234 NINVNKILKFITAKLF  249 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~  249 (268)
                      |.|++++|+++.+.++
T Consensus       153 ~~gi~~l~~~l~~~~~  168 (168)
T cd01897         153 EEGVDEVKNKACELLL  168 (168)
T ss_pred             cCCHHHHHHHHHHHhC
Confidence            9999999999998763

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.

>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=99.93  E-value=9.8e-25  Score=175.78  Aligned_cols=156  Identities=19%  Similarity=0.256  Sum_probs=122.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|..|+|||||++++..+.+. ...||+|.+.  ..+.+++  +.+.+||.+|+..++.+|+.|+.++|++|
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~-~~~pT~g~~~--~~i~~~~--~~~~~~d~gG~~~~~~~w~~y~~~~~~iI   86 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEIS-ETIPTIGFNI--EEIKYKG--YSLTIWDLGGQESFRPLWKSYFQNADGII   86 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEE-EEEEESSEEE--EEEEETT--EEEEEEEESSSGGGGGGGGGGHTTESEEE
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhcccc-ccCccccccc--ceeeeCc--EEEEEEeccccccccccceeeccccceeE
Confidence            55799999999999999999999987653 4778888664  4455554  56889999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH------HhCCeEEEEcCC
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK------ALNATLFFSSAT  232 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~Sa~  232 (268)
                      +|+|.+|.+.+.+....+..+....  .+.|.+|++||+|+...       ...+++.....      ...+.++.|||+
T Consensus        87 fVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~-------~~~~~i~~~l~l~~l~~~~~~~v~~~sa~  159 (175)
T PF00025_consen   87 FVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDA-------MSEEEIKEYLGLEKLKNKRPWSVFSCSAK  159 (175)
T ss_dssp             EEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS-------STHHHHHHHTTGGGTTSSSCEEEEEEBTT
T ss_pred             EEEecccceeecccccchhhhcchhhcccceEEEEeccccccCc-------chhhHHHhhhhhhhcccCCceEEEeeecc
Confidence            9999999999999988887776542  24444699999996322       12233333222      334568889999


Q ss_pred             CCcCHHHHHHHHHHHH
Q 041042          233 YNINVNKILKFITAKL  248 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i  248 (268)
                      +|+|+.+.|+||.+.+
T Consensus       160 ~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  160 TGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             TTBTHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHhcC
Confidence            9999999999999875

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 ....

>cd01898 Obg Obg subfamily

Probab=99.93  E-value=2e-24  Score=172.47  Aligned_cols=156  Identities=14%  Similarity=0.132  Sum_probs=110.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc----ccccchhhhhc---CCc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA----KAQDHLPVACK---DSI  157 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~----~~~~~~~~~~~---~a~  157 (268)
                      .|+++|.+|||||||++++.+........+....+.....+.+++ ...+.+|||+|+.    .+..+...+++   .+|
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d   80 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIERTR   80 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCC-CCeEEEEecCcccCcccccCCchHHHHHHHHhCC
Confidence            589999999999999999987654222212111121112233333 2468999999964    22334444444   599


Q ss_pred             EEEEEEeCCCh-hhHHHHHHHHHHHHHhCC---CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-hCCeEEEEcCC
Q 041042          158 AILFMFDLTSR-CTLKSVIRWYQQARKCNQ---TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-LNATLFFSSAT  232 (268)
Q Consensus       158 ~vilv~D~~~~-~s~~~~~~~~~~i~~~~~---~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~  232 (268)
                      ++++|+|+++. ++++.+..|++.+....+   ..|+++|+||+|+.   +   .....+....+... .+.+++++||+
T Consensus        81 ~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~---~---~~~~~~~~~~~~~~~~~~~~~~~Sa~  154 (170)
T cd01898          81 LLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLL---D---EEELFELLKELLKELWGKPVFPISAL  154 (170)
T ss_pred             EEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcC---C---chhhHHHHHHHHhhCCCCCEEEEecC
Confidence            99999999999 899999999999887653   45558999999972   1   22234445555665 37889999999


Q ss_pred             CCcCHHHHHHHHHHH
Q 041042          233 YNINVNKILKFITAK  247 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~  247 (268)
                      ++.|++++|+++.+.
T Consensus       155 ~~~gi~~l~~~i~~~  169 (170)
T cd01898         155 TGEGLDELLRKLAEL  169 (170)
T ss_pred             CCCCHHHHHHHHHhh
Confidence            999999999999865

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.93  E-value=2.3e-24  Score=189.47  Aligned_cols=206  Identities=15%  Similarity=0.116  Sum_probs=139.6

Q ss_pred             hhhhhccCCCCCCCcCCCCCCCCCCCCccccCCCCCCCCCCCCccCCCCCCCCCCceeE----EEEEEcCCCChHHHHHH
Q 041042           26 EKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHLDADNLVAL----KISLLGDCHIGKTSFLE  101 (268)
Q Consensus        26 ~~~~~~s~g~~~~~~~l~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----ki~vlG~~~vGKSsLi~  101 (268)
                      +++++|.+|.+++....+..+. ...|.....|.+.              +...-..++    .|.|+|.||||||||++
T Consensus       112 ~~~~~a~gg~gg~gn~~f~~~~-~~~p~~~~~g~~g--------------~~~~~~lelk~~adVglVG~PNaGKSTLln  176 (335)
T PRK12299        112 QRFLVAKGGKGGLGNAHFKSST-NRAPRYATPGEPG--------------EERWLRLELKLLADVGLVGLPNAGKSTLIS  176 (335)
T ss_pred             cEEEEecCCCCcCCchhhcccc-CCCCccccCCCCC--------------cEEEEEEEEcccCCEEEEcCCCCCHHHHHH
Confidence            6789999999998766554433 3444444433321              111122233    57799999999999999


Q ss_pred             HHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc----cccchhhh---hcCCcEEEEEEeCCChhhHHHH
Q 041042          102 KYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK----AQDHLPVA---CKDSIAILFMFDLTSRCTLKSV  174 (268)
Q Consensus       102 ~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~----~~~~~~~~---~~~a~~vilv~D~~~~~s~~~~  174 (268)
                      ++.+........+.+..+.....+.+. ....+.+||++|.-.    ...+...|   ++.++++|+|+|+++.++++.+
T Consensus       177 ~ls~a~~~va~ypfTT~~p~~G~v~~~-~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~~  255 (335)
T PRK12299        177 AVSAAKPKIADYPFTTLHPNLGVVRVD-DYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEAVDPVEDY  255 (335)
T ss_pred             HHHcCCCccCCCCCceeCceEEEEEeC-CCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCCCCCHHHH
Confidence            999865433322222222322334442 223578999999632    22344443   4579999999999998899999


Q ss_pred             HHHHHHHHHhCC---CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          175 IRWYQQARKCNQ---TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       175 ~~~~~~i~~~~~---~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ..|.+++..+.+   +.|.|||+||+|+.   ..  .....+..+.+++..+.+++++||++++|++++|++|.+.+.+.
T Consensus       256 ~~~~~EL~~~~~~L~~kp~IIV~NKiDL~---~~--~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~eL~~~L~~~l~~~  330 (335)
T PRK12299        256 KTIRNELEKYSPELADKPRILVLNKIDLL---DE--EEEREKRAALELAALGGPVFLISAVTGEGLDELLRALWELLEEA  330 (335)
T ss_pred             HHHHHHHHHhhhhcccCCeEEEEECcccC---Cc--hhHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHHHHhh
Confidence            999999988754   45668999999972   21  12223445555666778999999999999999999999887654


Q ss_pred             c
Q 041042          252 P  252 (268)
Q Consensus       252 ~  252 (268)
                      +
T Consensus       331 ~  331 (335)
T PRK12299        331 R  331 (335)
T ss_pred             h
Confidence            3

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.92  E-value=6e-24  Score=166.17  Aligned_cols=157  Identities=17%  Similarity=0.267  Sum_probs=129.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|.+|+|||||++++.+..+...+.++++.++....+..++..+.+.+||++|++.+..++..+++.+++++.+
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~   80 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRV   80 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEE
Confidence            37999999999999999999999998778888888888877788888778899999999999999999999999999999


Q ss_pred             EeCCCh-hhHHHHH-HHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          163 FDLTSR-CTLKSVI-RWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       163 ~D~~~~-~s~~~~~-~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      +|+... .++.... .|...+..... +.|.++|+||+|+.   .   ..........+......+++++||++|.|+.+
T Consensus        81 ~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~---~---~~~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~  154 (161)
T TIGR00231        81 FDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLR---D---AKLKTHVAFLFAKLNGEPIIPLSAETGKNIDS  154 (161)
T ss_pred             EEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCC---c---chhhHHHHHHHhhccCCceEEeecCCCCCHHH
Confidence            999888 7777766 77777776655 45557999999972   1   11223444444555567899999999999999


Q ss_pred             HHHHHH
Q 041042          240 ILKFIT  245 (268)
Q Consensus       240 ~f~~l~  245 (268)
                      +|++|-
T Consensus       155 ~~~~l~  160 (161)
T TIGR00231       155 AFKIVE  160 (161)
T ss_pred             HHHHhh
Confidence            999863

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.

>cd04171 SelB SelB subfamily

Probab=99.92  E-value=3.3e-24  Score=169.85  Aligned_cols=153  Identities=14%  Similarity=0.127  Sum_probs=105.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC---CCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD---EKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~---~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      -|+++|++|||||||+++|.+.   .+...+.++++.+.....+.+.+ ...+++|||+|+++|......+++++|++++
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~   80 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLL   80 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEE
Confidence            5899999999999999999864   33333334334444334455542 3578999999999987777778899999999


Q ss_pred             EEeCCC---hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH---hCCeEEEEcCCCCc
Q 041042          162 MFDLTS---RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA---LNATLFFSSATYNI  235 (268)
Q Consensus       162 v~D~~~---~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~Sa~~~~  235 (268)
                      |+|+++   .++++.+.    .+... ...++++|+||+|+.   .........++..++.+.   .+.+++++||++|.
T Consensus        81 V~d~~~~~~~~~~~~~~----~~~~~-~~~~~ilv~NK~Dl~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  152 (164)
T cd04171          81 VVAADEGIMPQTREHLE----ILELL-GIKRGLVVLTKADLV---DEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGE  152 (164)
T ss_pred             EEECCCCccHhHHHHHH----HHHHh-CCCcEEEEEECcccc---CHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCc
Confidence            999987   44444332    22222 223567999999972   211112234445555544   46889999999999


Q ss_pred             CHHHHHHHHHH
Q 041042          236 NVNKILKFITA  246 (268)
Q Consensus       236 ~i~~~f~~l~~  246 (268)
                      |++++|+.+.+
T Consensus       153 ~v~~l~~~l~~  163 (164)
T cd04171         153 GIEELKEYLDE  163 (164)
T ss_pred             CHHHHHHHHhh
Confidence            99999998764

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.92  E-value=9.8e-24  Score=185.26  Aligned_cols=205  Identities=15%  Similarity=0.136  Sum_probs=137.1

Q ss_pred             hhhhhccCCCCCCCcCCCCCCCCCCCCccccCCCCCCCCCCCCccCCCCCCCCCCceeEEEEEEcCCCChHHHHHHHHhc
Q 041042           26 EKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        26 ~~~~~~s~g~~~~~~~l~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++++|.+|.+++....+..+. ...|.....|.+.+..          .-.-+-.....|+++|.+|||||||++++.+
T Consensus       111 ~~~~~a~gg~gg~gn~~f~~~~-~~~p~~~~~g~~g~~~----------~~~lelk~~adV~lvG~pnaGKSTLl~~lt~  179 (329)
T TIGR02729       111 QRFVVAKGGRGGLGNAHFKSST-NRAPRFATPGEPGEER----------WLRLELKLLADVGLVGLPNAGKSTLISAVSA  179 (329)
T ss_pred             cEEEecCCCCCCCCcccccCcc-CCCCcccCCCCCCcEE----------EEEEEeeccccEEEEcCCCCCHHHHHHHHhc
Confidence            6788999999997766555443 3344433333321111          0001111124688999999999999999998


Q ss_pred             CCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc----cccchhhhh---cCCcEEEEEEeCCCh---hhHHHHH
Q 041042          106 DEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK----AQDHLPVAC---KDSIAILFMFDLTSR---CTLKSVI  175 (268)
Q Consensus       106 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~----~~~~~~~~~---~~a~~vilv~D~~~~---~s~~~~~  175 (268)
                      ........+.+........+.+++ ...+.+|||||...    ...+...|+   +.++++++|+|+++.   ++++.+.
T Consensus       180 ~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~  258 (329)
T TIGR02729       180 AKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYE  258 (329)
T ss_pred             CCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHH
Confidence            754322222112222223344443 35688999999743    223444554   469999999999987   7888999


Q ss_pred             HHHHHHHHhCC---CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          176 RWYQQARKCNQ---TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       176 ~~~~~i~~~~~---~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .|.+++..+.+   ..|.+||+||+|+.   .   .....+..+.+++..+.+++++||++++|++++|++|.+.+
T Consensus       259 ~l~~EL~~~~~~l~~kp~IIV~NK~DL~---~---~~~~~~~~~~l~~~~~~~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       259 IIRNELKKYSPELAEKPRIVVLNKIDLL---D---EEELAELLKELKKALGKPVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             HHHHHHHHhhhhhccCCEEEEEeCccCC---C---hHHHHHHHHHHHHHcCCcEEEEEccCCcCHHHHHHHHHHHh
Confidence            99998887753   45668999999972   2   12234556667777788999999999999999999998764

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.92  E-value=1e-23  Score=169.05  Aligned_cols=150  Identities=17%  Similarity=0.260  Sum_probs=115.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|.+|||||||++++.+..+. .+.+|.|.++  ..+..++  ..+.+||++|+..+...+..+++++|++++
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~--~~i~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~   87 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNI--KTVQSDG--FKLNVWDIGGQRAIRPYWRNYFENTDCLIY   87 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcce--EEEEECC--EEEEEEECCCCHHHHHHHHHHhcCCCEEEE
Confidence            3699999999999999999999988763 4667777554  3444554  568899999999988888999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC--------eEEEEcC
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA--------TLFFSSA  231 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~Sa  231 (268)
                      |+|+++..++.....|+..+....  ...|.++++||+|+.   ...       ...++.+..++        +++++||
T Consensus        88 v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~---~~~-------~~~~i~~~l~~~~~~~~~~~~~~~Sa  157 (173)
T cd04155          88 VIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLA---TAA-------PAEEIAEALNLHDLRDRTWHIQACSA  157 (173)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCc---cCC-------CHHHHHHHcCCcccCCCeEEEEEeEC
Confidence            999999999998887777665432  244557999999962   111       11222333332        4688999


Q ss_pred             CCCcCHHHHHHHHHH
Q 041042          232 TYNINVNKILKFITA  246 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~  246 (268)
                      ++|+|++++|++|++
T Consensus       158 ~~~~gi~~~~~~l~~  172 (173)
T cd04155         158 KTGEGLQEGMNWVCK  172 (173)
T ss_pred             CCCCCHHHHHHHHhc
Confidence            999999999999975

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.

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.91  E-value=6.2e-24  Score=166.27  Aligned_cols=165  Identities=18%  Similarity=0.183  Sum_probs=127.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ...+++|+++|-.++||||+++++..+++... .||+|.+..  ++.+.  .+.+.+||.+||++++.+|++||++.+++
T Consensus        14 ~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiGfnVE--~v~yk--n~~f~vWDvGGq~k~R~lW~~Y~~~t~~l   88 (181)
T KOG0070|consen   14 GKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIGFNVE--TVEYK--NISFTVWDVGGQEKLRPLWKHYFQNTQGL   88 (181)
T ss_pred             CcceEEEEEEeccCCCceeeeEeeccCCcccC-CCcccccee--EEEEc--ceEEEEEecCCCcccccchhhhccCCcEE
Confidence            34469999999999999999999999987655 999997654  34333  67899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+|+|.+|++.+.++++-+..+.....  ..|.++.+||.|++..++..  ++...-...-.+.....+..|+|.+|+|+
T Consensus        89 IfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als~~--ei~~~L~l~~l~~~~w~iq~~~a~~G~GL  166 (181)
T KOG0070|consen   89 IFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALSAA--EITNKLGLHSLRSRNWHIQSTCAISGEGL  166 (181)
T ss_pred             EEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCCHH--HHHhHhhhhccCCCCcEEeeccccccccH
Confidence            999999999999999987777766643  44446999999975444421  11111111111123344666999999999


Q ss_pred             HHHHHHHHHHHhcC
Q 041042          238 NKILKFITAKLFDI  251 (268)
Q Consensus       238 ~~~f~~l~~~i~~~  251 (268)
                      .|.++++.+.+...
T Consensus       167 ~egl~wl~~~~~~~  180 (181)
T KOG0070|consen  167 YEGLDWLSNNLKKR  180 (181)
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999887653

>cd01878 HflX HflX subfamily

Probab=99.90  E-value=5.3e-23  Score=169.54  Aligned_cols=154  Identities=14%  Similarity=0.136  Sum_probs=110.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc---------cccchhhhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK---------AQDHLPVAC  153 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~---------~~~~~~~~~  153 (268)
                      .++|+|+|.+|||||||++++.+..+.....+....+.....+.+++. ..+.+|||+|...         +.... ..+
T Consensus        41 ~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~-~~~  118 (204)
T cd01878          41 IPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTL-EEV  118 (204)
T ss_pred             CCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHH-HHH
Confidence            379999999999999999999998753332221122233334444443 2688999999732         11111 236


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      ..+|++++|+|+++..++..+..|.+.+..... +.++++|+||+|+.   +..   ...    .++...+.+++++||+
T Consensus       119 ~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~---~~~---~~~----~~~~~~~~~~~~~Sa~  188 (204)
T cd01878         119 AEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLL---DDE---ELE----ERLEAGRPDAVFISAK  188 (204)
T ss_pred             hcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccC---ChH---HHH----HHhhcCCCceEEEEcC
Confidence            789999999999999999888888887776654 34557999999972   211   111    4455567889999999


Q ss_pred             CCcCHHHHHHHHHHHH
Q 041042          233 YNINVNKILKFITAKL  248 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i  248 (268)
                      +|.|++++|++|.+.+
T Consensus       189 ~~~gi~~l~~~L~~~~  204 (204)
T cd01878         189 TGEGLDELLEAIEELL  204 (204)
T ss_pred             CCCCHHHHHHHHHhhC
Confidence            9999999999998753

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.

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

Probab=99.90  E-value=8.9e-23  Score=160.76  Aligned_cols=148  Identities=15%  Similarity=0.148  Sum_probs=111.7

Q ss_pred             EEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc------chhhhhc--CCcEE
Q 041042           88 LLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD------HLPVACK--DSIAI  159 (268)
Q Consensus        88 vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~------~~~~~~~--~a~~v  159 (268)
                      |+|.+|||||||++++.+..+.....++++.+.....+.+++  ..+.+|||+|++.+..      +...++.  ++|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            589999999999999999876555566666666666777776  4688999999987764      3566665  99999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |+|+|+++.++.   ..|...+...  +.|.|+|+||+|+.   .   ..........+++.++++++++||++|.|+++
T Consensus        79 i~v~d~~~~~~~---~~~~~~~~~~--~~~~iiv~NK~Dl~---~---~~~~~~~~~~~~~~~~~~~~~iSa~~~~~~~~  147 (158)
T cd01879          79 VNVVDATNLERN---LYLTLQLLEL--GLPVVVALNMIDEA---E---KRGIKIDLDKLSELLGVPVVPTSARKGEGIDE  147 (158)
T ss_pred             EEEeeCCcchhH---HHHHHHHHHc--CCCEEEEEehhhhc---c---cccchhhHHHHHHhhCCCeEEEEccCCCCHHH
Confidence            999999886543   2444444432  45668999999972   1   11223335577888899999999999999999


Q ss_pred             HHHHHHHHH
Q 041042          240 ILKFITAKL  248 (268)
Q Consensus       240 ~f~~l~~~i  248 (268)
                      +|+.+.+.+
T Consensus       148 l~~~l~~~~  156 (158)
T cd01879         148 LKDAIAELA  156 (158)
T ss_pred             HHHHHHHHh
Confidence            999998763

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.90  E-value=1.5e-22  Score=178.90  Aligned_cols=170  Identities=16%  Similarity=0.286  Sum_probs=123.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCC---CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc-cccchh-----
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQ---GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK-AQDHLP-----  150 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-~~~~~~-----  150 (268)
                      +.+.+||+++|.+|||||||+|+|++..+..   ....|  .+.....+..++.  .+.+|||+|+.. +..+..     
T Consensus        49 ~~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tT--r~~~~~~~~~~~~--qi~~~DTpG~~~~~~~l~~~~~r~  124 (339)
T PRK15494         49 NQKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTT--RSIITGIITLKDT--QVILYDTPGIFEPKGSLEKAMVRC  124 (339)
T ss_pred             ccceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCc--cCcEEEEEEeCCe--EEEEEECCCcCCCcccHHHHHHHH
Confidence            3556899999999999999999999987642   12222  2333445555554  578999999843 333222     


Q ss_pred             --hhhcCCcEEEEEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC--Ce
Q 041042          151 --VACKDSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN--AT  225 (268)
Q Consensus       151 --~~~~~a~~vilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--~~  225 (268)
                        .+++++|++++|+|.++  +|.... .|++.+...  +.++|+|+||+|+.    .  .  ...++.+++...+  ..
T Consensus       125 ~~~~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~--~~p~IlViNKiDl~----~--~--~~~~~~~~l~~~~~~~~  192 (339)
T PRK15494        125 AWSSLHSADLVLLIIDSLK--SFDDITHNILDKLRSL--NIVPIFLLNKIDIE----S--K--YLNDIKAFLTENHPDSL  192 (339)
T ss_pred             HHHHhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhc--CCCEEEEEEhhcCc----c--c--cHHHHHHHHHhcCCCcE
Confidence              34779999999999754  555554 455555443  45678999999972    1  1  1344555555544  67


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHHHhcCccchhcccCCCCCC
Q 041042          226 LFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGEPI  265 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~i~~~~~~~~~~~~~~~~i  265 (268)
                      ++++||++|.|++++|++|.+.+.+.++..+.+..++.+.
T Consensus       193 i~~iSAktg~gv~eL~~~L~~~l~~~~~~~~~~~~td~~~  232 (339)
T PRK15494        193 LFPISALSGKNIDGLLEYITSKAKISPWLYAEDDITDLPM  232 (339)
T ss_pred             EEEEeccCccCHHHHHHHHHHhCCCCCCCCCCCCCCCCCH
Confidence            9999999999999999999999999999999988887753

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.90  E-value=5.1e-23  Score=168.45  Aligned_cols=150  Identities=13%  Similarity=0.162  Sum_probs=109.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc--CCCCCCC------------CCCcceeeEEEEEEECCeEEEEEEEeCCCccccccch
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG--DEKEQGG------------SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHL  149 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~  149 (268)
                      -+|+++|.++||||||+++|+.  +.|...+            ..+.|.++..+...++.+.+.+++|||+|+++|..+.
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~   82 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEV   82 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHH
Confidence            3899999999999999999987  4554433            2345666666666666677889999999999999999


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-------Hh
Q 041042          150 PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-------AL  222 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-------~~  222 (268)
                      ..+++++|++++|||+++. .+.....|+..+..  .+.|+++|+||+|+.    ........+++.++..       ..
T Consensus        83 ~~~~~~~d~~ilV~d~~~~-~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~----~~~~~~~~~~~~~~~~~~~~~~~~~  155 (194)
T cd01891          83 ERVLSMVDGVLLLVDASEG-PMPQTRFVLKKALE--LGLKPIVVINKIDRP----DARPEEVVDEVFDLFIELGATEEQL  155 (194)
T ss_pred             HHHHHhcCEEEEEEECCCC-ccHHHHHHHHHHHH--cCCCEEEEEECCCCC----CCCHHHHHHHHHHHHHHhCCccccC
Confidence            9999999999999999874 23333444544433  245668999999972    2222233455555553       33


Q ss_pred             CCeEEEEcCCCCcCHHHH
Q 041042          223 NATLFFSSATYNINVNKI  240 (268)
Q Consensus       223 ~~~~~~~Sa~~~~~i~~~  240 (268)
                      +++++++||++|.|+.+.
T Consensus       156 ~~~iv~~Sa~~g~~~~~~  173 (194)
T cd01891         156 DFPVLYASAKNGWASLNL  173 (194)
T ss_pred             ccCEEEeehhcccccccc
Confidence            788999999999887443

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

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.90  E-value=2.1e-22  Score=181.39  Aligned_cols=207  Identities=14%  Similarity=0.154  Sum_probs=138.2

Q ss_pred             hhhhhccCCCCCCCcCCCCCCCCCCCCccccCCCCCCCCCCCCccCCCCCCCCCCceeEEEEEEcCCCChHHHHHHHHhc
Q 041042           26 EKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        26 ~~~~~~s~g~~~~~~~l~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++++|.+|.+++....+..+. ..+|.....+.+.+..          .-.-+-.....|+++|.+|||||||++++++
T Consensus       112 ~~~~va~GG~gG~gn~~F~~s~-~~~p~~~~~G~~ge~~----------~~~lelk~~adVglVG~pNaGKSTLLn~Lt~  180 (424)
T PRK12297        112 QEVVVAKGGRGGRGNAHFATST-NQAPRIAENGEPGEER----------ELRLELKLLADVGLVGFPNVGKSTLLSVVSN  180 (424)
T ss_pred             cEEEEECCCCCCcCchhhcCCC-CCCCCcCCCCCCCeEe----------EEEEeecccCcEEEEcCCCCCHHHHHHHHHc
Confidence            6789999999998766555444 3344443333321111          0011111123688999999999999999998


Q ss_pred             CCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc----cccchhhhh---cCCcEEEEEEeCCCh---hhHHHHH
Q 041042          106 DEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK----AQDHLPVAC---KDSIAILFMFDLTSR---CTLKSVI  175 (268)
Q Consensus       106 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~----~~~~~~~~~---~~a~~vilv~D~~~~---~s~~~~~  175 (268)
                      .+......+.+..+.....+.+++ ...+.+||+||...    ...+...|+   +.++++|+|+|+++.   ++++++.
T Consensus       181 ak~kIa~ypfTTl~PnlG~v~~~~-~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~  259 (424)
T PRK12297        181 AKPKIANYHFTTLVPNLGVVETDD-GRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYE  259 (424)
T ss_pred             CCCccccCCcceeceEEEEEEEeC-CceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHH
Confidence            764322222112222222333331 34588999999632    233445554   459999999999865   6788888


Q ss_pred             HHHHHHHHhCC---CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          176 RWYQQARKCNQ---TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       176 ~~~~~i~~~~~---~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      .|.+++..+.+   ..|.|||+||+||    +.     ..+....+++..+.+++++||+++.|+++++++|.+.+.+.+
T Consensus       260 ~i~~EL~~y~~~L~~kP~IVV~NK~DL----~~-----~~e~l~~l~~~l~~~i~~iSA~tgeGI~eL~~~L~~~l~~~~  330 (424)
T PRK12297        260 KINKELKLYNPRLLERPQIVVANKMDL----PE-----AEENLEEFKEKLGPKVFPISALTGQGLDELLYAVAELLEETP  330 (424)
T ss_pred             HHHHHHhhhchhccCCcEEEEEeCCCC----cC-----CHHHHHHHHHHhCCcEEEEeCCCCCCHHHHHHHHHHHHHhCc
Confidence            99999988754   4566899999996    11     124456677777788999999999999999999999887765


Q ss_pred             c
Q 041042          253 W  253 (268)
Q Consensus       253 ~  253 (268)
                      .
T Consensus       331 ~  331 (424)
T PRK12297        331 E  331 (424)
T ss_pred             c
Confidence            4

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.90  E-value=9.1e-24  Score=165.08  Aligned_cols=165  Identities=22%  Similarity=0.351  Sum_probs=146.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+|++++|+.|.|||+++++...++|...+.+|+|+....-...-+...+++..|||+|+|.+..+...||-.+.+.|
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAi   87 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAI   87 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeE
Confidence            34799999999999999999999999999999999999887665555556799999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ++||++.+-++.++.+|...+.+.+.+.|++++|||.|.       ..+.+....-.+-+..++.|+++||+++.|.+.-
T Consensus        88 imFdVtsr~t~~n~~rwhrd~~rv~~NiPiv~cGNKvDi-------~~r~~k~k~v~~~rkknl~y~~iSaksn~NfekP  160 (216)
T KOG0096|consen   88 IMFDVTSRFTYKNVPRWHRDLVRVRENIPIVLCGNKVDI-------KARKVKAKPVSFHRKKNLQYYEISAKSNYNFERP  160 (216)
T ss_pred             EEeeeeehhhhhcchHHHHHHHHHhcCCCeeeeccceec-------cccccccccceeeecccceeEEeecccccccccc
Confidence            999999999999999999999999888777899999994       2222344455677788999999999999999999


Q ss_pred             HHHHHHHHhcCc
Q 041042          241 LKFITAKLFDIP  252 (268)
Q Consensus       241 f~~l~~~i~~~~  252 (268)
                      |-++++.+...+
T Consensus       161 Fl~LarKl~G~p  172 (216)
T KOG0096|consen  161 FLWLARKLTGDP  172 (216)
T ss_pred             hHHHhhhhcCCC
Confidence            999999988776

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.90  E-value=1.1e-25  Score=175.29  Aligned_cols=167  Identities=20%  Similarity=0.265  Sum_probs=144.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCe-EEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGA-RISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      ..+.+|+.|+|+-|||||+++++++...|...|..|+|++|..+....+.+ .+++++||.+||++|..+...||+.+++
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~  101 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHG  101 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcc
Confidence            355799999999999999999999999999999999999998888877654 4789999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhC----CCC-ceEEEEeCCCCCCCCCccchhch--HHHHHHHHHHhCC-eEEEEc
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCN----QTA-IPIIIGTKFDDFIQLPIDLQWTI--ASQARAYAKALNA-TLFFSS  230 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~----~~~-~~ilvgnK~Dl~~~~~~~~~~~~--~~~~~~~~~~~~~-~~~~~S  230 (268)
                      ..+|||+++.-+|+.+..|.+++....    ... |.|+.+||||+      +.....  .....++++++|+ ..+++|
T Consensus       102 ~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~------e~~a~~~~~~~~d~f~kengf~gwtets  175 (229)
T KOG4423|consen  102 AFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQ------EKSAKNEATRQFDNFKKENGFEGWTETS  175 (229)
T ss_pred             eEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhcc------ChHhhhhhHHHHHHHHhccCccceeeec
Confidence            999999999999999999999987652    122 23688999996      222222  4678889999997 489999


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCc
Q 041042          231 ATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +|.+.|++|+-..+++.++-+.
T Consensus       176 ~Kenkni~Ea~r~lVe~~lvnd  197 (229)
T KOG4423|consen  176 AKENKNIPEAQRELVEKILVND  197 (229)
T ss_pred             cccccChhHHHHHHHHHHHhhc
Confidence            9999999999999999888776

>PRK04213 GTP-binding protein; Provisional

Probab=99.90  E-value=5e-23  Score=169.27  Aligned_cols=152  Identities=18%  Similarity=0.291  Sum_probs=104.3

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC-----------ccccccchh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG-----------DAKAQDHLP  150 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G-----------~~~~~~~~~  150 (268)
                      ..+||+++|.+|||||||+++|.+..+...+.+++  ++....+.+.    .+.+|||+|           ++.++.++.
T Consensus         8 ~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~--t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   81 (201)
T PRK04213          8 RKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGV--TRKPNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEIV   81 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCce--eeCceEEeec----ceEEEeCCccccccccCHHHHHHHHHHHH
Confidence            35899999999999999999999988766566643  4433444333    488999999           567777777


Q ss_pred             hhhc-C---CcEEEEEEeCCChhhHHHHHHH------------HHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHH
Q 041042          151 VACK-D---SIAILFMFDLTSRCTLKSVIRW------------YQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQ  214 (268)
Q Consensus       151 ~~~~-~---a~~vilv~D~~~~~s~~~~~~~------------~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~  214 (268)
                      .|++ .   ++++++|+|.++...+  ...|            +..+..  .+.|++||+||+|+.   ..   .  .+.
T Consensus        82 ~~~~~~~~~~~~vi~v~d~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~--~~~p~iiv~NK~Dl~---~~---~--~~~  149 (201)
T PRK04213         82 RYIEDNADRILAAVLVVDGKSFIEI--IERWEGRGEIPIDVEMFDFLRE--LGIPPIVAVNKMDKI---KN---R--DEV  149 (201)
T ss_pred             HHHHhhhhhheEEEEEEeCcccccc--ccccccCCCcHHHHHHHHHHHH--cCCCeEEEEECcccc---Cc---H--HHH
Confidence            7765 3   4677777776543211  0122            222222  245668999999962   11   1  234


Q ss_pred             HHHHHHHhCC---------eEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          215 ARAYAKALNA---------TLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       215 ~~~~~~~~~~---------~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      ..++++.+++         +++++||++| |++++|++|.+.+.+..
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~~~  195 (201)
T PRK04213        150 LDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHEAK  195 (201)
T ss_pred             HHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcCcc
Confidence            5566666665         4799999999 99999999998875543

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

Probab=99.89  E-value=3e-22  Score=159.40  Aligned_cols=158  Identities=11%  Similarity=0.064  Sum_probs=108.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC-CeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      .|+++|.+|||||||+++|..+.+.....+++..++....+..+ +....+.+|||+|++.|..++..++..+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            48999999999999999999988766544444434333334333 23567899999999999988888999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH------HhCCeEEEEcCCCCcCH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK------ALNATLFFSSATYNINV  237 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~Sa~~~~~i  237 (268)
                      |+++....+... .+..+..  .+.|+++|+||+|+.    ........+....+..      ...++++++||++|.|+
T Consensus        82 d~~~~~~~~~~~-~~~~~~~--~~~p~ivv~NK~Dl~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  154 (168)
T cd01887          82 AADDGVMPQTIE-AIKLAKA--ANVPFIVALNKIDKP----NANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGI  154 (168)
T ss_pred             ECCCCccHHHHH-HHHHHHH--cCCCEEEEEEceecc----cccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCH
Confidence            998843222111 1222322  245668999999972    1111111222222221      12468999999999999


Q ss_pred             HHHHHHHHHHHh
Q 041042          238 NKILKFITAKLF  249 (268)
Q Consensus       238 ~~~f~~l~~~i~  249 (268)
                      +++|++|.+...
T Consensus       155 ~~l~~~l~~~~~  166 (168)
T cd01887         155 DDLLEAILLLAE  166 (168)
T ss_pred             HHHHHHHHHhhh
Confidence            999999987654

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.

>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=99.89  E-value=1.1e-22  Score=153.08  Aligned_cols=114  Identities=25%  Similarity=0.462  Sum_probs=91.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCC--CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKE--QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ||+|+|++|||||||+++|.+..+.  ..+.++.+.++......+......+.+||++|++.+...+..++..+|++++|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv   80 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV   80 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence            8999999999999999999998875  22333444555555667777777799999999999988888889999999999


Q ss_pred             EeCCChhhHHHHH---HHHHHHHHhCCCCceEEEEeCCC
Q 041042          163 FDLTSRCTLKSVI---RWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       163 ~D~~~~~s~~~~~---~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      ||+++.+||+.+.   .|+..+.....+.|.||||||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~~~~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKRDKNIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHccCCCCCEEEEEeccC
Confidence            9999999999875   56777777666766689999998

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.

>TIGR00436 era GTP-binding protein Era

Probab=99.89  E-value=6.3e-22  Score=170.10  Aligned_cols=167  Identities=15%  Similarity=0.158  Sum_probs=119.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCC--CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc-c-------chhhhhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKE--QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ-D-------HLPVACK  154 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-~-------~~~~~~~  154 (268)
                      +|+++|.+|||||||+|+|++..+.  .....|+.. .. ..+...+ ...+.+|||||..... .       ....+++
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~-~i-~~i~~~~-~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~   78 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRN-RI-SGIHTTG-ASQIIFIDTPGFHEKKHSLNRLMMKEARSAIG   78 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccC-cE-EEEEEcC-CcEEEEEECcCCCCCcchHHHHHHHHHHHHHh
Confidence            6899999999999999999998753  223334332 21 2222222 2458899999975421 1       1245678


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEcCCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSSATY  233 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~  233 (268)
                      ++|++++|+|+++..+++  ..+++.+..  .+.|.++|+||+|+   .   ......+....++...+. +++++||++
T Consensus        79 ~aDvvl~VvD~~~~~~~~--~~i~~~l~~--~~~p~ilV~NK~Dl---~---~~~~~~~~~~~~~~~~~~~~v~~iSA~~  148 (270)
T TIGR00436        79 GVDLILFVVDSDQWNGDG--EFVLTKLQN--LKRPVVLTRNKLDN---K---FKDKLLPLIDKYAILEDFKDIVPISALT  148 (270)
T ss_pred             hCCEEEEEEECCCCCchH--HHHHHHHHh--cCCCEEEEEECeeC---C---CHHHHHHHHHHHHhhcCCCceEEEecCC
Confidence            999999999999877764  444444443  24556899999997   2   122334455566666554 789999999


Q ss_pred             CcCHHHHHHHHHHHHhcCccchhcccCCCCC
Q 041042          234 NINVNKILKFITAKLFDIPWTLERNLTIGEP  264 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~~~~~~~~~~~~~~  264 (268)
                      |.|++++++.+.+.+.+.++..+.+..++.+
T Consensus       149 g~gi~~L~~~l~~~l~~~~~~~~~~~~t~~~  179 (270)
T TIGR00436       149 GDNTSFLAAFIEVHLPEGPFRYPEDYVTDQP  179 (270)
T ss_pred             CCCHHHHHHHHHHhCCCCCCCCCCcccCCCC
Confidence            9999999999999999999888887777665

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

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.89  E-value=1.8e-23  Score=156.93  Aligned_cols=161  Identities=19%  Similarity=0.265  Sum_probs=126.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++.+.++|..++|||||++....+.+.....||+|.+.+    .+....+.+.+||.+||.+|+++|..|+++++++++|
T Consensus        20 emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnmr----k~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~   95 (186)
T KOG0075|consen   20 EMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNMR----KVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYV   95 (186)
T ss_pred             eeeEEEEeeccCCcceEEEEEeeccchhhhcccccceeE----EeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEE
Confidence            588999999999999999999999999999999997765    4556778899999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC-CCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN-QTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~-~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      +|++|++.++..+.-++.+.... -..+| +|.|||.|+...+..  ...+......-.....+.+|.+||++..||+.+
T Consensus        96 VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~--~~li~rmgL~sitdREvcC~siScke~~Nid~~  173 (186)
T KOG0075|consen   96 VDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSK--IALIERMGLSSITDREVCCFSISCKEKVNIDIT  173 (186)
T ss_pred             eecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccH--HHHHHHhCccccccceEEEEEEEEcCCccHHHH
Confidence            99999998888776666654443 24455 589999997544433  111111111112233456899999999999999


Q ss_pred             HHHHHHHHh
Q 041042          241 LKFITAKLF  249 (268)
Q Consensus       241 f~~l~~~i~  249 (268)
                      .+||++...
T Consensus       174 ~~Wli~hsk  182 (186)
T KOG0075|consen  174 LDWLIEHSK  182 (186)
T ss_pred             HHHHHHHhh
Confidence            999987643

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.89  E-value=8.1e-22  Score=148.99  Aligned_cols=166  Identities=15%  Similarity=0.140  Sum_probs=136.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCC--CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc-ccchhhhhcCCcEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDE--KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA-QDHLPVACKDSIAI  159 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~-~~~~~~~~~~a~~v  159 (268)
                      ..||+++|..+||||+++.+++.+.  ....+.+|+...|....-+-+|..-.+.++||+|-..+ ..+-++|+.-+|++
T Consensus         9 ~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDaf   88 (198)
T KOG3883|consen    9 VCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADAF   88 (198)
T ss_pred             ceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCceE
Confidence            4899999999999999999987765  34557778765544333334566778999999998777 67889999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCC-C-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQ-T-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~-~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      ++|||..|++||+.+.....+|.++.. + .|++|+|||+|+.     +..++..+-++.||+.-.+..++++|+....+
T Consensus        89 VLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~-----~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL  163 (198)
T KOG3883|consen   89 VLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRA-----EPREVDMDVAQIWAKREKVKLWEVTAMDRPSL  163 (198)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcc-----cchhcCHHHHHHHHhhhheeEEEEEeccchhh
Confidence            999999999999999877777776643 3 3446899999972     34556688999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCcc
Q 041042          238 NKILKFITAKLFDIPW  253 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~~  253 (268)
                      -|.|..++..+.+...
T Consensus       164 ~epf~~l~~rl~~pqs  179 (198)
T KOG3883|consen  164 YEPFTYLASRLHQPQS  179 (198)
T ss_pred             hhHHHHHHHhccCCcc
Confidence            9999999999887753

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.89  E-value=8.9e-22  Score=176.29  Aligned_cols=221  Identities=15%  Similarity=0.134  Sum_probs=144.4

Q ss_pred             hhhhhccCCCCCCCcCCCCCCCCCCCCccccCCCCCCCCCCCCccCCCCCCCCCCceeEEEEEEcCCCChHHHHHHHHhc
Q 041042           26 EKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        26 ~~~~~~s~g~~~~~~~l~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++++|.+|.+++....+..+. ...|.....+.+.+..          .-.-+-.....|.|+|.||||||||+|++.+
T Consensus       113 ~~~~~a~GG~gG~gn~~f~~~~-~~~p~~~~~g~~g~~~----------~~~lelk~iadValVG~PNaGKSTLln~Lt~  181 (390)
T PRK12298        113 QRLLVAKGGWHGLGNTRFKSSV-NRAPRQKTPGTPGEER----------ELKLELKLLADVGLLGLPNAGKSTFIRAVSA  181 (390)
T ss_pred             cEEEEecCCCCccchhhhccCc-cCCCcccCCCCCCceE----------EEEEeeeccccEEEEcCCCCCHHHHHHHHhC
Confidence            6789999999998766554443 2334333333321111          0000011122588999999999999999998


Q ss_pred             CCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc----chh---hhhcCCcEEEEEEeCC---ChhhHHHHH
Q 041042          106 DEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD----HLP---VACKDSIAILFMFDLT---SRCTLKSVI  175 (268)
Q Consensus       106 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~----~~~---~~~~~a~~vilv~D~~---~~~s~~~~~  175 (268)
                      .+......|.+........+..++ ...+.++||||...-..    +..   ..++.++++++|+|++   +.+.++.+.
T Consensus       182 ~k~~vs~~p~TT~~p~~Giv~~~~-~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~  260 (390)
T PRK12298        182 AKPKVADYPFTTLVPNLGVVRVDD-ERSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENAR  260 (390)
T ss_pred             CcccccCCCCCccCcEEEEEEeCC-CcEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCcccccChHHHHH
Confidence            764333333222222223333332 23478999999643211    122   2478899999999998   566788888


Q ss_pred             HHHHHHHHhCC---CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC--CeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          176 RWYQQARKCNQ---TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN--ATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       176 ~~~~~i~~~~~---~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      .|++++..+..   ..|.|||+||+|+.   .   .....+.+..+.+..+  .+++.+||+++.|++++++.|.+.+.+
T Consensus       261 ~l~~eL~~~~~~L~~kP~IlVlNKiDl~---~---~~el~~~l~~l~~~~~~~~~Vi~ISA~tg~GIdeLl~~I~~~L~~  334 (390)
T PRK12298        261 IIINELEKYSPKLAEKPRWLVFNKIDLL---D---EEEAEERAKAIVEALGWEGPVYLISAASGLGVKELCWDLMTFIEE  334 (390)
T ss_pred             HHHHHHHhhhhhhcCCCEEEEEeCCccC---C---hHHHHHHHHHHHHHhCCCCCEEEEECCCCcCHHHHHHHHHHHhhh
Confidence            89988887653   45668999999972   1   2223455556666554  468999999999999999999999988


Q ss_pred             CccchhcccCCCCC
Q 041042          251 IPWTLERNLTIGEP  264 (268)
Q Consensus       251 ~~~~~~~~~~~~~~  264 (268)
                      .++..+.+...+++
T Consensus       335 ~~~~~~~~~~td~~  348 (390)
T PRK12298        335 NPREEAEEAEAPEK  348 (390)
T ss_pred             CcccCCcccccCcc
Confidence            88776666665544

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.89  E-value=4.8e-22  Score=183.29  Aligned_cols=163  Identities=15%  Similarity=0.174  Sum_probs=117.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc----------ccccch-
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA----------KAQDHL-  149 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~----------~~~~~~-  149 (268)
                      ..+||+++|.+|||||||+++|++..+ .....++++.+.....+.+++..  +.+|||+|..          .|..+. 
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~--~~l~DTaG~~~~~~~~~~~e~~~~~~~  287 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKT--WRFVDTAGLRRRVKQASGHEYYASLRT  287 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEE--EEEEECCCccccccccchHHHHHHHHH
Confidence            358999999999999999999999864 23455556667666777777766  4689999953          333332 


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHH-HHHHHhCCeEEE
Q 041042          150 PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQAR-AYAKALNATLFF  228 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  228 (268)
                      ..+++++|++|+|||+++..+++.+. ++..+..  .+.+.|||+||+||.   .........+++. .+.....+++++
T Consensus       288 ~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~--~~~piIiV~NK~Dl~---~~~~~~~~~~~i~~~l~~~~~~~~~~  361 (472)
T PRK03003        288 HAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE--AGRALVLAFNKWDLV---DEDRRYYLEREIDRELAQVPWAPRVN  361 (472)
T ss_pred             HHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH--cCCCEEEEEECcccC---ChhHHHHHHHHHHHhcccCCCCCEEE
Confidence            34678999999999999998888764 4444443  345668999999972   2222222223332 233334578999


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          229 SSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +||++|.||+++|+.+.+.+.+..
T Consensus       362 ~SAk~g~gv~~lf~~i~~~~~~~~  385 (472)
T PRK03003        362 ISAKTGRAVDKLVPALETALESWD  385 (472)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHhc
Confidence            999999999999999998775444

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.88  E-value=1.7e-21  Score=150.57  Aligned_cols=153  Identities=24%  Similarity=0.389  Sum_probs=119.8

Q ss_pred             EEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCC
Q 041042           88 LLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLT  166 (268)
Q Consensus        88 vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~  166 (268)
                      ++|.+|+|||||++++.+... .....+|. .++........+....+.+||++|+..+......+++.+|++++|+|++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            589999999999999999876 45556665 7777777777777889999999999988888888999999999999999


Q ss_pred             ChhhHHHHHHHH--HHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHH
Q 041042          167 SRCTLKSVIRWY--QQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI  244 (268)
Q Consensus       167 ~~~s~~~~~~~~--~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l  244 (268)
                      +..++..+..|.  ..........+.++|+||+|+.   ... ...............+.+++++|++++.|+++++++|
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~---~~~-~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  155 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLP---EER-VVSEEELAEQLAKELGVPYFETSAKTGENVEELFEEL  155 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccc---ccc-chHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHH
Confidence            999999998873  2223334455668999999962   111 1111112445566678899999999999999999997


Q ss_pred             H
Q 041042          245 T  245 (268)
Q Consensus       245 ~  245 (268)
                      .
T Consensus       156 ~  156 (157)
T cd00882         156 A  156 (157)
T ss_pred             h
Confidence            5

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.88  E-value=1.4e-21  Score=178.16  Aligned_cols=208  Identities=13%  Similarity=0.067  Sum_probs=134.9

Q ss_pred             hhhhhccCCCCCCCcCCCCCCCCCCCCccccCCCCCCCCCCCCccCCCCCCCCCCceeEEEEEEcCCCChHHHHHHHHhc
Q 041042           26 EKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        26 ~~~~~~s~g~~~~~~~l~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++++|.+|.+++......++. ..+|.....|.+.+..          .-.-+-....+|+|+|.||||||||+++|.+
T Consensus       113 ~~~~~a~GG~GG~Gn~~f~~~~-~~~p~~~~~G~~Ge~~----------~~~leLk~~adV~LVG~PNAGKSTLln~Ls~  181 (500)
T PRK12296        113 TRFVAAAGGRGGLGNAALASKA-RKAPGFALLGEPGEER----------DLVLELKSVADVGLVGFPSAGKSSLISALSA  181 (500)
T ss_pred             CEEEEEccCCCcCCCcccCCcc-CCCCccccCCCCCceE----------EEEEEecccceEEEEEcCCCCHHHHHHHHhc
Confidence            6788999999997765554444 3455555544432221          1011111124788999999999999999998


Q ss_pred             CCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc----cccchhh---hhcCCcEEEEEEeCCC----hhhHHHH
Q 041042          106 DEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK----AQDHLPV---ACKDSIAILFMFDLTS----RCTLKSV  174 (268)
Q Consensus       106 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~----~~~~~~~---~~~~a~~vilv~D~~~----~~s~~~~  174 (268)
                      .+......+.+........+.+.+  ..+.+|||+|...    ...+...   +++.++++|+|+|+++    ++.++++
T Consensus       182 akpkIadypfTTl~P~lGvv~~~~--~~f~laDtPGliegas~g~gLg~~fLrhieradvLv~VVD~s~~e~~rdp~~d~  259 (500)
T PRK12296        182 AKPKIADYPFTTLVPNLGVVQAGD--TRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDCATLEPGRDPLSDI  259 (500)
T ss_pred             CCccccccCcccccceEEEEEECC--eEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEEECCcccccccCchhhH
Confidence            764332223222233333444444  4688999999532    1222222   3577999999999986    3466667


Q ss_pred             HHHHHHHHHhCC------------CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          175 IRWYQQARKCNQ------------TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       175 ~~~~~~i~~~~~------------~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      ..|.+++..+..            ..|.|||+||+|+    ++  .....+.........+++++++||+++.|++++++
T Consensus       260 ~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL----~d--a~el~e~l~~~l~~~g~~Vf~ISA~tgeGLdEL~~  333 (500)
T PRK12296        260 DALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDV----PD--ARELAEFVRPELEARGWPVFEVSAASREGLRELSF  333 (500)
T ss_pred             HHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccc----hh--hHHHHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            777777766542            4566899999996    22  12223333334455688999999999999999999


Q ss_pred             HHHHHHhcCc
Q 041042          243 FITAKLFDIP  252 (268)
Q Consensus       243 ~l~~~i~~~~  252 (268)
                      +|.+.+...+
T Consensus       334 ~L~ell~~~r  343 (500)
T PRK12296        334 ALAELVEEAR  343 (500)
T ss_pred             HHHHHHHhhh
Confidence            9998887655

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.87  E-value=3e-21  Score=175.70  Aligned_cols=152  Identities=15%  Similarity=0.225  Sum_probs=115.9

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc--------hhhh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH--------LPVA  152 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~--------~~~~  152 (268)
                      ..+||+++|.+|||||||+|+|++... .....++++.++....+.+++..  +++|||+|+..+...        ...+
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g~~--v~l~DTaG~~~~~~~ie~~gi~~~~~~  279 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNGIL--IKLLDTAGIREHADFVERLGIEKSFKA  279 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECCEE--EEEeeCCCcccchhHHHHHHHHHHHHH
Confidence            358999999999999999999998753 12333445567777777787755  689999998665432        2467


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          153 CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      ++++|++++|||+++..+++..  |+..+..  .+.|.|+|+||+|+.    ..       +...+++.++.+++++||+
T Consensus       280 ~~~aD~il~V~D~s~~~s~~~~--~l~~~~~--~~~piIlV~NK~Dl~----~~-------~~~~~~~~~~~~~~~vSak  344 (442)
T TIGR00450       280 IKQADLVIYVLDASQPLTKDDF--LIIDLNK--SKKPFILVLNKIDLK----IN-------SLEFFVSSKVLNSSNLSAK  344 (442)
T ss_pred             HhhCCEEEEEEECCCCCChhHH--HHHHHhh--CCCCEEEEEECccCC----Cc-------chhhhhhhcCCceEEEEEe
Confidence            8999999999999999888775  7766643  245668999999972    11       1234567778899999999


Q ss_pred             CCcCHHHHHHHHHHHHhcC
Q 041042          233 YNINVNKILKFITAKLFDI  251 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~~  251 (268)
                      + .||+++|+.+.+.+.+.
T Consensus       345 ~-~gI~~~~~~L~~~i~~~  362 (442)
T TIGR00450       345 Q-LKIKALVDLLTQKINAF  362 (442)
T ss_pred             c-CCHHHHHHHHHHHHHHH
Confidence            8 69999999998887654

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.87  E-value=2.8e-21  Score=171.15  Aligned_cols=152  Identities=12%  Similarity=0.107  Sum_probs=108.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc---------ccccchhhhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA---------KAQDHLPVAC  153 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~---------~~~~~~~~~~  153 (268)
                      .++|+++|.+|||||||+|+|++..+.....+....+.....+.+++. ..+.+|||+|..         .|.... ..+
T Consensus       189 ~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~-~~i~l~DT~G~~~~l~~~lie~f~~tl-e~~  266 (351)
T TIGR03156       189 VPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDG-GEVLLTDTVGFIRDLPHELVAAFRATL-EEV  266 (351)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCC-ceEEEEecCcccccCCHHHHHHHHHHH-HHH
Confidence            489999999999999999999998754333322234555566776432 368899999972         232222 247


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      .+||++++|+|++++.+++.+..|...+..... +.|.|+|+||+|+.   +.   .    +...+. ....+++++||+
T Consensus       267 ~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~---~~---~----~v~~~~-~~~~~~i~iSAk  335 (351)
T TIGR03156       267 READLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLL---DE---P----RIERLE-EGYPEAVFVSAK  335 (351)
T ss_pred             HhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCC---Ch---H----hHHHHH-hCCCCEEEEEcc
Confidence            899999999999999988888777776666543 45558999999972   11   1    111111 123468999999


Q ss_pred             CCcCHHHHHHHHHHH
Q 041042          233 YNINVNKILKFITAK  247 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~  247 (268)
                      +|.|++++++.|.+.
T Consensus       336 tg~GI~eL~~~I~~~  350 (351)
T TIGR03156       336 TGEGLDLLLEAIAER  350 (351)
T ss_pred             CCCCHHHHHHHHHhh
Confidence            999999999998764

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).

>cd01889 SelB_euk SelB subfamily

Probab=99.87  E-value=4.4e-21  Score=156.76  Aligned_cols=161  Identities=13%  Similarity=0.054  Sum_probs=103.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC----CCCCCC-----CCCcceeeEEEEEE----------ECCeEEEEEEEeCCCccc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD----EKEQGG-----SPGEGLNMMDKTLL----------VRGARISYSIWEVTGDAK  144 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~----~~~~~~-----~~t~~~~~~~~~~~----------~~~~~~~l~i~Dt~G~~~  144 (268)
                      ++|+++|.+|+|||||+++|++.    .+....     ..|++..+....+.          ..+....+++|||+|+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            48999999999999999999872    121111     13444444333332          123467899999999876


Q ss_pred             cccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHH-H---
Q 041042          145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA-K---  220 (268)
Q Consensus       145 ~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~-~---  220 (268)
                      +..........+|++++|+|+++..+......|. .... . +.++++|+||+|+   ..........+++.+.. +   
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~-~~~~-~-~~~~iiv~NK~Dl---~~~~~~~~~~~~~~~~l~~~~~  154 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV-IGEI-L-CKKLIVVLNKIDL---IPEEERERKIEKMKKKLQKTLE  154 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH-HHHH-c-CCCEEEEEECccc---CCHHHHHHHHHHHHHHHHHHHH
Confidence            5333333346789999999998755444333332 1111 1 3466799999997   22222222233333221 1   


Q ss_pred             ---HhCCeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          221 ---ALNATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       221 ---~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                         ..+++++++||++|.|++++++++..++.-
T Consensus       155 ~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~~  187 (192)
T cd01889         155 KTRFKNSPIIPVSAKPGGGEAELGKDLNNLIVL  187 (192)
T ss_pred             hcCcCCCCEEEEeccCCCCHHHHHHHHHhcccc
Confidence               236789999999999999999999988754

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

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.87  E-value=5.7e-21  Score=154.73  Aligned_cols=159  Identities=14%  Similarity=0.117  Sum_probs=111.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCc--------------ceeeEEEEEEECCeEEEEEEEeCCCccccccchh
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE--------------GLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLP  150 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~--------------~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~  150 (268)
                      +|+++|.+|+|||||++++.+.........+.              +.........++.....+.+|||+|+..+...+.
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~   80 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVI   80 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHH
Confidence            48999999999999999999887654432211              1111111112222346789999999999888888


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH---------
Q 041042          151 VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA---------  221 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~---------  221 (268)
                      .+++.+|++++|+|+++..+... ..++..+..  .+.++++|+||+|+   ..++......+++++..+.         
T Consensus        81 ~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~--~~~~i~iv~nK~D~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (189)
T cd00881          81 RGLSVSDGAILVVDANEGVQPQT-REHLRIARE--GGLPIIVAINKIDR---VGEEDLEEVLREIKELLGLIGFISTKEE  154 (189)
T ss_pred             HHHHhcCEEEEEEECCCCCcHHH-HHHHHHHHH--CCCCeEEEEECCCC---cchhcHHHHHHHHHHHHccccccchhhh
Confidence            99999999999999987665443 334444443  35566799999997   3222222334445444443         


Q ss_pred             -----hCCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          222 -----LNATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       222 -----~~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                           ...+++++||++|.|++++|+++.+.+.
T Consensus       155 ~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l~  187 (189)
T cd00881         155 GTRNGLLVPIVPGSALTGIGVEELLEAIVEHLP  187 (189)
T ss_pred             hcccCCcceEEEEecccCcCHHHHHHHHHhhCC
Confidence                 3578999999999999999999998863

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.87  E-value=1.6e-21  Score=154.41  Aligned_cols=140  Identities=10%  Similarity=0.107  Sum_probs=99.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc-----cccchhhhhcCCcEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK-----AQDHLPVACKDSIAI  159 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~~~~~a~~v  159 (268)
                      ||+++|.+|||||||++++.+...  ....|.+..       +.+.    .+|||||+..     +..+. ..++++|++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~--~~~~~~~v~-------~~~~----~~iDtpG~~~~~~~~~~~~~-~~~~~ad~i   68 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYT--LARKTQAVE-------FNDK----GDIDTPGEYFSHPRWYHALI-TTLQDVDML   68 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCc--cCccceEEE-------ECCC----CcccCCccccCCHHHHHHHH-HHHhcCCEE
Confidence            799999999999999999876531  112333322       2222    2699999732     22222 237899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC--eEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA--TLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~Sa~~~~~i  237 (268)
                      ++|+|+++.+++  +..|+..+   ....|.++++||+|+.    .    ...+.+.+++++.++  +++++||++|+|+
T Consensus        69 l~v~d~~~~~s~--~~~~~~~~---~~~~~ii~v~nK~Dl~----~----~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi  135 (158)
T PRK15467         69 IYVHGANDPESR--LPAGLLDI---GVSKRQIAVISKTDMP----D----ADVAATRKLLLETGFEEPIFELNSHDPQSV  135 (158)
T ss_pred             EEEEeCCCcccc--cCHHHHhc---cCCCCeEEEEEccccC----c----ccHHHHHHHHHHcCCCCCEEEEECCCccCH
Confidence            999999988876  33455443   2344567999999962    1    124556777778875  8999999999999


Q ss_pred             HHHHHHHHHHHhcC
Q 041042          238 NKILKFITAKLFDI  251 (268)
Q Consensus       238 ~~~f~~l~~~i~~~  251 (268)
                      +++|+.+.+.+.+.
T Consensus       136 ~~l~~~l~~~~~~~  149 (158)
T PRK15467        136 QQLVDYLASLTKQE  149 (158)
T ss_pred             HHHHHHHHHhchhh
Confidence            99999998776544

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

Probab=99.87  E-value=3.9e-21  Score=154.03  Aligned_cols=153  Identities=14%  Similarity=0.069  Sum_probs=105.1

Q ss_pred             EEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc----cccch---hhhhcCCcEE
Q 041042           88 LLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK----AQDHL---PVACKDSIAI  159 (268)
Q Consensus        88 vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~----~~~~~---~~~~~~a~~v  159 (268)
                      ++|.+|||||||++++.+..+. ..+..| ..+.....+.+++ ...+.+|||+|...    ...+.   ..+++++|++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~-t~~~~~~~~~~~~-~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~i   78 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFT-TLEPNLGVVEVPD-GARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAI   78 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCce-eecCcceEEEcCC-CCeEEEEeccccchhhhcCCCccHHHHHHHhccCEE
Confidence            5899999999999999998642 222222 1222223344441 34578999999632    22332   2346789999


Q ss_pred             EEEEeCCCh------hhHHHHHHHHHHHHHhCC--------CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe
Q 041042          160 LFMFDLTSR------CTLKSVIRWYQQARKCNQ--------TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT  225 (268)
Q Consensus       160 ilv~D~~~~------~s~~~~~~~~~~i~~~~~--------~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (268)
                      ++|+|+++.      .+++.+..|...+.....        ..|.++|+||+|+.   ..  ...............+..
T Consensus        79 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~---~~--~~~~~~~~~~~~~~~~~~  153 (176)
T cd01881          79 LHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLD---DA--EELEEELVRELALEEGAE  153 (176)
T ss_pred             EEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcC---ch--hHHHHHHHHHHhcCCCCC
Confidence            999999998      578888888888876542        45567999999972   11  111122233445556788


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHH
Q 041042          226 LFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      ++++||+++.|++++++++.+.
T Consensus       154 ~~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         154 VVPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             EEEEehhhhcCHHHHHHHHHhh
Confidence            9999999999999999998764

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

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.87  E-value=9.7e-21  Score=154.78  Aligned_cols=159  Identities=15%  Similarity=0.157  Sum_probs=110.7

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCc----------cccccchh
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD----------AKAQDHLP  150 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~----------~~~~~~~~  150 (268)
                      ....||+++|.+|||||||++++++..+...+.++.|.+........   ...+.+|||+|.          +.+..+..
T Consensus        22 ~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~   98 (196)
T PRK00454         22 DDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQKLIE   98 (196)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHHHHHH
Confidence            34689999999999999999999998766666666665543332222   256899999994          34445556


Q ss_pred             hhhcCC---cEEEEEEeCCChhhHHH--HHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe
Q 041042          151 VACKDS---IAILFMFDLTSRCTLKS--VIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT  225 (268)
Q Consensus       151 ~~~~~a---~~vilv~D~~~~~s~~~--~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (268)
                      .|++.+   +++++|+|.++..+...  +..|+   ..  .+.+.++++||+|+   ++........+++.........+
T Consensus        99 ~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l---~~--~~~~~iiv~nK~Dl---~~~~~~~~~~~~i~~~l~~~~~~  170 (196)
T PRK00454         99 EYLRTRENLKGVVLLIDSRHPLKELDLQMIEWL---KE--YGIPVLIVLTKADK---LKKGERKKQLKKVRKALKFGDDE  170 (196)
T ss_pred             HHHHhCccceEEEEEEecCCCCCHHHHHHHHHH---HH--cCCcEEEEEECccc---CCHHHHHHHHHHHHHHHHhcCCc
Confidence            666655   67888899877554432  22333   22  23455799999997   33333333344555555555788


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          226 LFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      ++++||+++.|++++|+.|.+.+.+
T Consensus       171 ~~~~Sa~~~~gi~~l~~~i~~~~~~  195 (196)
T PRK00454        171 VILFSSLKKQGIDELRAAIAKWLAE  195 (196)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            9999999999999999999877654

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.86  E-value=4.6e-21  Score=142.89  Aligned_cols=157  Identities=18%  Similarity=0.214  Sum_probs=121.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ++++|+++|..++||||++..++-+.. ....||+|.+..  +++  .+.+++++||.+|+++.+.+|++||.+..++|+
T Consensus        16 KE~~ilmlGLd~aGKTtiLyKLkl~~~-~~~ipTvGFnve--tVt--ykN~kfNvwdvGGqd~iRplWrhYy~gtqglIF   90 (180)
T KOG0071|consen   16 KEMRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVGFNVE--TVT--YKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   90 (180)
T ss_pred             ccceEEEEecccCCceehhhHHhcCCC-cccccccceeEE--EEE--eeeeEEeeeeccCchhhhHHHHhhccCCceEEE
Confidence            369999999999999999999988775 567888886654  433  356789999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC-C-CCceEEEEeCCCCCCCCCccchhchHHHHHHHH-----HHhCCeEEEEcCCCC
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN-Q-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA-----KALNATLFFSSATYN  234 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~-~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~  234 (268)
                      |.|..+.+..++.+.-+..+.... - +.+.+|.+||.|++....       .+++..+.     +....-...+||.+|
T Consensus        91 V~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~-------pqei~d~leLe~~r~~~W~vqp~~a~~g  163 (180)
T KOG0071|consen   91 VVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMK-------PQEIQDKLELERIRDRNWYVQPSCALSG  163 (180)
T ss_pred             EEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccC-------HHHHHHHhccccccCCccEeeccccccc
Confidence            999999998888886666654432 2 334468999999632222       23333332     223344566999999


Q ss_pred             cCHHHHHHHHHHHHhc
Q 041042          235 INVNKILKFITAKLFD  250 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~  250 (268)
                      +|+.|-|.|+.+.+..
T Consensus       164 dgL~eglswlsnn~~~  179 (180)
T KOG0071|consen  164 DGLKEGLSWLSNNLKE  179 (180)
T ss_pred             hhHHHHHHHHHhhccC
Confidence            9999999999887643

>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=99.86  E-value=1.9e-21  Score=152.03  Aligned_cols=148  Identities=15%  Similarity=0.195  Sum_probs=106.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc------cchhhhh--cC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ------DHLPVAC--KD  155 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~------~~~~~~~--~~  155 (268)
                      ++|+++|.||||||||+|++++.+......|.+.++.....+.+.+.  .+.++|+||.....      .+...|+  ..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~~--~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~   78 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGDQ--QVELVDLPGIYSLSSKSEEERVARDYLLSEK   78 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETTE--EEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecCc--eEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence            58999999999999999999999866666776666776667777774  47799999954332      2334444  68


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCc
Q 041042          156 SIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNI  235 (268)
Q Consensus       156 a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  235 (268)
                      .|++|+|.|+++.+.--.+   ..++.+.  +.|.|+|.||+|+      ..+.....+...+.+.+|++.+.+||++++
T Consensus        79 ~D~ii~VvDa~~l~r~l~l---~~ql~e~--g~P~vvvlN~~D~------a~~~g~~id~~~Ls~~Lg~pvi~~sa~~~~  147 (156)
T PF02421_consen   79 PDLIIVVVDATNLERNLYL---TLQLLEL--GIPVVVVLNKMDE------AERKGIEIDAEKLSERLGVPVIPVSARTGE  147 (156)
T ss_dssp             SSEEEEEEEGGGHHHHHHH---HHHHHHT--TSSEEEEEETHHH------HHHTTEEE-HHHHHHHHTS-EEEEBTTTTB
T ss_pred             CCEEEEECCCCCHHHHHHH---HHHHHHc--CCCEEEEEeCHHH------HHHcCCEECHHHHHHHhCCCEEEEEeCCCc
Confidence            9999999999886533233   3333332  4566899999996      333334456788899999999999999999


Q ss_pred             CHHHHHHHH
Q 041042          236 NVNKILKFI  244 (268)
Q Consensus       236 ~i~~~f~~l  244 (268)
                      |++++++.|
T Consensus       148 g~~~L~~~I  156 (156)
T PF02421_consen  148 GIDELKDAI  156 (156)
T ss_dssp             THHHHHHHH
T ss_pred             CHHHHHhhC
Confidence            999999875

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 ....

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.86  E-value=7e-21  Score=175.55  Aligned_cols=154  Identities=20%  Similarity=0.257  Sum_probs=108.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc--------cccchhhhhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK--------AQDHLPVACK  154 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--------~~~~~~~~~~  154 (268)
                      .+|+|+|.+|||||||+++|++..+. ....++++.+.....+.+++..  +.+|||+|.+.        +......+++
T Consensus        39 ~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~~--~~l~DT~G~~~~~~~~~~~~~~~~~~~~~  116 (472)
T PRK03003         39 PVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGRR--FTVVDTGGWEPDAKGLQASVAEQAEVAMR  116 (472)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCcE--EEEEeCCCcCCcchhHHHHHHHHHHHHHH
Confidence            69999999999999999999987642 3344444445555555666654  78999999763        3334566789


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      .||++|+|||+++..++.. ..|...+..  .+.|+|+|+||+|+..    .    ..+....+....+ ..+++||++|
T Consensus       117 ~aD~il~VvD~~~~~s~~~-~~i~~~l~~--~~~piilV~NK~Dl~~----~----~~~~~~~~~~g~~-~~~~iSA~~g  184 (472)
T PRK03003        117 TADAVLFVVDATVGATATD-EAVARVLRR--SGKPVILAANKVDDER----G----EADAAALWSLGLG-EPHPVSALHG  184 (472)
T ss_pred             hCCEEEEEEECCCCCCHHH-HHHHHHHHH--cCCCEEEEEECccCCc----c----chhhHHHHhcCCC-CeEEEEcCCC
Confidence            9999999999998876543 344444443  3456689999999621    1    1112222232333 3478999999


Q ss_pred             cCHHHHHHHHHHHHhcC
Q 041042          235 INVNKILKFITAKLFDI  251 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~~  251 (268)
                      .|++++|+++++.+.+.
T Consensus       185 ~gi~eL~~~i~~~l~~~  201 (472)
T PRK03003        185 RGVGDLLDAVLAALPEV  201 (472)
T ss_pred             CCcHHHHHHHHhhcccc
Confidence            99999999999988663

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.86  E-value=9.6e-21  Score=178.06  Aligned_cols=158  Identities=11%  Similarity=0.150  Sum_probs=119.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC-------CCCCCCCC------cceeeEEEEEEE-----CCeEEEEEEEeCCCcccc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE-------KEQGGSPG------EGLNMMDKTLLV-----RGARISYSIWEVTGDAKA  145 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~-------~~~~~~~t------~~~~~~~~~~~~-----~~~~~~l~i~Dt~G~~~~  145 (268)
                      -+|+++|..++|||||+++|+...       +...+..+      .|.++....+.+     ++..+.+++|||+|+++|
T Consensus         4 RNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF   83 (595)
T TIGR01393         4 RNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDF   83 (595)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHH
Confidence            479999999999999999998642       22333322      366666554443     567789999999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-  224 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-  224 (268)
                      ...+..+++.+|++|+|||+++..+++....|...+.   .+.+.|+|+||+|+.    ...   ..+...++++.+++ 
T Consensus        84 ~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~---~~ipiIiViNKiDl~----~~~---~~~~~~el~~~lg~~  153 (595)
T TIGR01393        84 SYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE---NDLEIIPVINKIDLP----SAD---PERVKKEIEEVIGLD  153 (595)
T ss_pred             HHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH---cCCCEEEEEECcCCC----ccC---HHHHHHHHHHHhCCC
Confidence            9999999999999999999999877777777765443   244567999999962    111   12233455566665 


Q ss_pred             --eEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          225 --TLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       225 --~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                        .++++||++|.|++++|+.|.+.+...
T Consensus       154 ~~~vi~vSAktG~GI~~Lle~I~~~lp~p  182 (595)
T TIGR01393       154 ASEAILASAKTGIGIEEILEAIVKRVPPP  182 (595)
T ss_pred             cceEEEeeccCCCCHHHHHHHHHHhCCCC
Confidence              479999999999999999999887554

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.

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

Probab=99.86  E-value=2.2e-20  Score=146.58  Aligned_cols=146  Identities=15%  Similarity=0.244  Sum_probs=106.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc--------hhhhhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH--------LPVACK  154 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~--------~~~~~~  154 (268)
                      +||+++|++|+|||||++++.+..+. ....+++..++....+..++  ..+.+|||+|...+...        ...++.
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~   79 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGG--IPVRLIDTAGIRETEDEIEKIGIERAREAIE   79 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCC--EEEEEEECCCcCCCcchHHHHHHHHHHHHHh
Confidence            68999999999999999999987642 22333344444444555554  45789999997665332        234677


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      .+|++++|+|+++..+......|..     ....++++|+||+|+.   ... ..        .....+.+++++||+++
T Consensus        80 ~~~~~v~v~d~~~~~~~~~~~~~~~-----~~~~~vi~v~nK~D~~---~~~-~~--------~~~~~~~~~~~~Sa~~~  142 (157)
T cd04164          80 EADLVLFVIDASRGLDEEDLEILEL-----PADKPIIVVLNKSDLL---PDS-EL--------LSLLAGKPIIAISAKTG  142 (157)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHh-----hcCCCEEEEEEchhcC---Ccc-cc--------ccccCCCceEEEECCCC
Confidence            9999999999999888777655433     3356668999999972   211 11        34455778999999999


Q ss_pred             cCHHHHHHHHHHHH
Q 041042          235 INVNKILKFITAKL  248 (268)
Q Consensus       235 ~~i~~~f~~l~~~i  248 (268)
                      .|+++++++|.+.+
T Consensus       143 ~~v~~l~~~l~~~~  156 (157)
T cd04164         143 EGLDELKEALLELA  156 (157)
T ss_pred             CCHHHHHHHHHHhh
Confidence            99999999988754

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.86  E-value=9.6e-21  Score=173.15  Aligned_cols=148  Identities=16%  Similarity=0.216  Sum_probs=111.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc--------hhhhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH--------LPVAC  153 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~--------~~~~~  153 (268)
                      .+||+++|.+|||||||+|+|++... .....+.+..++....+.+++.  .+.+|||+|.+.+...        ...++
T Consensus       215 ~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~--~i~l~DT~G~~~~~~~ie~~gi~~~~~~~  292 (449)
T PRK05291        215 GLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDGI--PLRLIDTAGIRETDDEVEKIGIERSREAI  292 (449)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECCe--EEEEEeCCCCCCCccHHHHHHHHHHHHHH
Confidence            48999999999999999999998764 2233444445666667777764  4789999998765432        23468


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCC
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATY  233 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  233 (268)
                      +++|++++|||+++..+++....|..     ..+.|.++|+||+|+.   +.   ....       ...+.+++++||++
T Consensus       293 ~~aD~il~VvD~s~~~s~~~~~~l~~-----~~~~piiiV~NK~DL~---~~---~~~~-------~~~~~~~i~iSAkt  354 (449)
T PRK05291        293 EEADLVLLVLDASEPLTEEDDEILEE-----LKDKPVIVVLNKADLT---GE---IDLE-------EENGKPVIRISAKT  354 (449)
T ss_pred             HhCCEEEEEecCCCCCChhHHHHHHh-----cCCCCcEEEEEhhhcc---cc---chhh-------hccCCceEEEEeeC
Confidence            89999999999999988887655543     3355668999999972   11   1111       34467899999999


Q ss_pred             CcCHHHHHHHHHHHHhc
Q 041042          234 NINVNKILKFITAKLFD  250 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~  250 (268)
                      |.|+++++++|.+.+..
T Consensus       355 g~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        355 GEGIDELREAIKELAFG  371 (449)
T ss_pred             CCCHHHHHHHHHHHHhh
Confidence            99999999999988754

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.85  E-value=3.9e-20  Score=169.07  Aligned_cols=163  Identities=18%  Similarity=0.207  Sum_probs=109.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccch-----------
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHL-----------  149 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-----------  149 (268)
                      ..+||+++|.+|||||||+++|++.... ....+.+..+.....+..++.  .+.+|||+|..++....           
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~e~~~~~~~  248 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGK--KYLLIDTAGIRRKGKVTEGVEKYSVLRT  248 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCc--EEEEEECCCccccccchhhHHHHHHHHH
Confidence            4589999999999999999999987632 223333333444445555555  57899999976554322           


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHH-HHHHhCCeEEE
Q 041042          150 PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARA-YAKALNATLFF  228 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  228 (268)
                      ..+++.+|++|+|+|+++..+.++.. ++..+...  +.+.|+|+||+|+..  ..+.......++.. +....++++++
T Consensus       249 ~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~~--~~~iiiv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~vi~  323 (429)
T TIGR03594       249 LKAIERADVVLLVLDATEGITEQDLR-IAGLILEA--GKALVIVVNKWDLVK--DEKTREEFKKELRRKLPFLDFAPIVF  323 (429)
T ss_pred             HHHHHhCCEEEEEEECCCCccHHHHH-HHHHHHHc--CCcEEEEEECcccCC--CHHHHHHHHHHHHHhcccCCCCceEE
Confidence            24678999999999999888776654 33333332  456689999999720  11111111222222 12223578999


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhcC
Q 041042          229 SSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      +||++|.|++++|+++.+.....
T Consensus       324 ~SA~~g~~v~~l~~~i~~~~~~~  346 (429)
T TIGR03594       324 ISALTGQGVDKLLDAIDEVYENA  346 (429)
T ss_pred             EeCCCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999998866543

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.

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

Probab=99.85  E-value=2.1e-20  Score=151.06  Aligned_cols=150  Identities=14%  Similarity=0.124  Sum_probs=102.4

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc----------ccccch
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA----------KAQDHL  149 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~----------~~~~~~  149 (268)
                      .....+|+|+|.+|+|||||++++.+..+...+.++.|.+.....+..++   .+.+|||+|..          .+..+.
T Consensus        15 ~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~~~   91 (179)
T TIGR03598        15 PDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQKLI   91 (179)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHHHH
Confidence            34568999999999999999999999875555555655554433333332   58899999942          344444


Q ss_pred             hhhhcC---CcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC--C
Q 041042          150 PVACKD---SIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN--A  224 (268)
Q Consensus       150 ~~~~~~---a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--~  224 (268)
                      ..|++.   ++++++|+|.++.-+..+.. ++..+...  ..|.++|+||+|+   ..........+++++.+...+  .
T Consensus        92 ~~~l~~~~~~~~ii~vvd~~~~~~~~~~~-~~~~~~~~--~~pviiv~nK~D~---~~~~~~~~~~~~i~~~l~~~~~~~  165 (179)
T TIGR03598        92 EEYLEKRENLKGVVLLMDIRHPLKELDLE-MLEWLRER--GIPVLIVLTKADK---LKKSELNKQLKKIKKALKKDADDP  165 (179)
T ss_pred             HHHHHhChhhcEEEEEecCCCCCCHHHHH-HHHHHHHc--CCCEEEEEECccc---CCHHHHHHHHHHHHHHHhhccCCC
Confidence            556654   57999999998765555442 23333322  3455799999997   333333334566667776664  5


Q ss_pred             eEEEEcCCCCcCHH
Q 041042          225 TLFFSSATYNINVN  238 (268)
Q Consensus       225 ~~~~~Sa~~~~~i~  238 (268)
                      .++++||++|+|++
T Consensus       166 ~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       166 SVQLFSSLKKTGID  179 (179)
T ss_pred             ceEEEECCCCCCCC
Confidence            79999999999974

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.85  E-value=4.6e-20  Score=144.84  Aligned_cols=146  Identities=16%  Similarity=0.146  Sum_probs=99.1

Q ss_pred             EEEcCCCChHHHHHHHHhcCC--CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc--------chhhhhcCC
Q 041042           87 SLLGDCHIGKTSFLEKYVGDE--KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD--------HLPVACKDS  156 (268)
Q Consensus        87 ~vlG~~~vGKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~--------~~~~~~~~a  156 (268)
                      +++|.+|||||||++++.+..  +.....+ +..+........++  ..+.+|||+|...+..        ....+++.+
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~-~t~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~   77 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPG-VTRDRIYGEAEWGG--REFILIDTGGIEPDDEGISKEIREQAELAIEEA   77 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCC-ceeCceeEEEEECC--eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhC
Confidence            479999999999999999875  2233333 23334444455554  5688999999887544        334567899


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEcCCCCc
Q 041042          157 IAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSSATYNI  235 (268)
Q Consensus       157 ~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~  235 (268)
                      |++++|+|..+..+..... ....+...  ..|.++|+||+|+.   ..   ...    .......+. +++++||++|.
T Consensus        78 d~ii~v~d~~~~~~~~~~~-~~~~~~~~--~~piiiv~nK~D~~---~~---~~~----~~~~~~~~~~~~~~~Sa~~~~  144 (157)
T cd01894          78 DVILFVVDGREGLTPADEE-IAKYLRKS--KKPVILVVNKVDNI---KE---EDE----AAEFYSLGFGEPIPISAEHGR  144 (157)
T ss_pred             CEEEEEEeccccCCccHHH-HHHHHHhc--CCCEEEEEECcccC---Ch---HHH----HHHHHhcCCCCeEEEecccCC
Confidence            9999999998765544321 22223222  35667999999972   11   111    222334555 78999999999


Q ss_pred             CHHHHHHHHHHHH
Q 041042          236 NVNKILKFITAKL  248 (268)
Q Consensus       236 ~i~~~f~~l~~~i  248 (268)
                      |++++|+++++.+
T Consensus       145 gv~~l~~~l~~~~  157 (157)
T cd01894         145 GIGDLLDAILELL  157 (157)
T ss_pred             CHHHHHHHHHhhC
Confidence            9999999998753

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.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.85  E-value=4.9e-20  Score=151.84  Aligned_cols=161  Identities=19%  Similarity=0.208  Sum_probs=111.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCC-cEEEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDS-IAILFMF  163 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a-~~vilv~  163 (268)
                      +|+++|++|||||||+++|..+.+...+.++ ..+.........+....+.+||+||+++++..+..+++.+ +++|+|+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~Vv   80 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVV   80 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEE
Confidence            5899999999999999999998876655443 3333222222224457799999999999998888999999 9999999


Q ss_pred             eCCCh-hhHHHHHHHHHHHHHh----CCCCceEEEEeCCCCCCCCCccchhc-hHHHHHHHHHHh---------------
Q 041042          164 DLTSR-CTLKSVIRWYQQARKC----NQTAIPIIIGTKFDDFIQLPIDLQWT-IASQARAYAKAL---------------  222 (268)
Q Consensus       164 D~~~~-~s~~~~~~~~~~i~~~----~~~~~~ilvgnK~Dl~~~~~~~~~~~-~~~~~~~~~~~~---------------  222 (268)
                      |+++. .++..+..|+..+...    .+..|++||+||+|+....+.+..+. ...++..+....               
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a~~~~~i~~~le~ei~~~~~~r~~~l~~~~~~~~~~~  160 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTAKPAKKIKEQLEKELNTLRESRSKSLSSLDGDEGSKE  160 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcccCCHHHHHHHHHHHHHHHHHHHhcccccccccccccc
Confidence            99998 7888887776655332    23555579999999854433221111 122332222211               


Q ss_pred             -----------------CCeEEEEcCCCCc-CHHHHHHHHHH
Q 041042          223 -----------------NATLFFSSATYNI-NVNKILKFITA  246 (268)
Q Consensus       223 -----------------~~~~~~~Sa~~~~-~i~~~f~~l~~  246 (268)
                                       .+.+.++|++.+. |++++.+||.+
T Consensus       161 ~~~~~~~~~f~f~~~~~~v~~~~~s~~~~~~~~~~~~~w~~~  202 (203)
T cd04105         161 SLGDKGGKSFEFDQLEGKVEFLEGSVKVDGGGIDGWEEWIDE  202 (203)
T ss_pred             ccccccCcceeeccCceeEEEEEeEEecCCCChHhHHHHHhh
Confidence                             1346778887766 58888887753

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

>PRK11058 GTPase HflX; Provisional

Probab=99.84  E-value=5.7e-20  Score=166.44  Aligned_cols=157  Identities=11%  Similarity=0.097  Sum_probs=109.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc--ccchh------hhhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA--QDHLP------VACKD  155 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~--~~~~~------~~~~~  155 (268)
                      .+|+++|.+|||||||+|+|++..+.....+..+.+.....+.+.+. ..+.+|||+|..+.  ..++.      ..++.
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~  276 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETRQ  276 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhhc
Confidence            58999999999999999999987754433333344555555666543 14679999997432  22222      23689


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe-EEEEcCCC
Q 041042          156 SIAILFMFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT-LFFSSATY  233 (268)
Q Consensus       156 a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~  233 (268)
                      ||++|+|+|++++.+++.+..|...+..... +.|+|+|+||+|+.   ...   ..  ...  ....+.+ ++++||++
T Consensus       277 ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~---~~~---~~--~~~--~~~~~~~~~v~ISAkt  346 (426)
T PRK11058        277 ATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDML---DDF---EP--RID--RDEENKPIRVWLSAQT  346 (426)
T ss_pred             CCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCC---Cch---hH--HHH--HHhcCCCceEEEeCCC
Confidence            9999999999999888887665555554433 45567999999972   111   11  111  1123555 48899999


Q ss_pred             CcCHHHHHHHHHHHHhcC
Q 041042          234 NINVNKILKFITAKLFDI  251 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~  251 (268)
                      |.|+++++++|.+.+...
T Consensus       347 G~GIdeL~e~I~~~l~~~  364 (426)
T PRK11058        347 GAGIPLLFQALTERLSGE  364 (426)
T ss_pred             CCCHHHHHHHHHHHhhhc
Confidence            999999999999988543

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.84  E-value=7.9e-20  Score=171.73  Aligned_cols=158  Identities=16%  Similarity=0.124  Sum_probs=117.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC---CCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD---EKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~---~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      +.|+++|..++|||||+++|.+.   .+...+..+++.++....+..++  ..+.+||+||+++|......++.++|+++
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aI   78 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAAL   78 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEE
Confidence            35899999999999999999963   34445555666666555566665  67899999999999888888889999999


Q ss_pred             EEEeCCC---hhhHHHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCCCCccchhchHHHHHHHHHHh----CCeEEEEcCC
Q 041042          161 FMFDLTS---RCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL----NATLFFSSAT  232 (268)
Q Consensus       161 lv~D~~~---~~s~~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~Sa~  232 (268)
                      +|+|+++   .++++.+.    .+...  +.+ +|||+||+|+   ...+......+++.++.+..    +++++++||+
T Consensus        79 LVVDa~~G~~~qT~ehl~----il~~l--gi~~iIVVlNK~Dl---v~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~  149 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHLA----VLDLL--GIPHTIVVITKADR---VNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAK  149 (581)
T ss_pred             EEEECCCCCcHHHHHHHH----HHHHc--CCCeEEEEEECCCC---CCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCC
Confidence            9999988   45555442    22222  445 5799999997   22222223456677777665    5789999999


Q ss_pred             CCcCHHHHHHHHHHHHhcCc
Q 041042          233 YNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +|.|++++++.+.+.+....
T Consensus       150 tG~GI~eL~~~L~~l~~~~~  169 (581)
T TIGR00475       150 TGQGIGELKKELKNLLESLD  169 (581)
T ss_pred             CCCCchhHHHHHHHHHHhCC
Confidence            99999999999887765543

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.84  E-value=7.5e-20  Score=172.07  Aligned_cols=146  Identities=14%  Similarity=0.151  Sum_probs=110.7

Q ss_pred             cCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc------hhhhh--cCCcEEEE
Q 041042           90 GDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH------LPVAC--KDSIAILF  161 (268)
Q Consensus        90 G~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~------~~~~~--~~a~~vil  161 (268)
                      |++|||||||+|++.+..+...+.++++.+.....+.+++.+  +++|||+|++.+...      .+.|+  +++|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~~~--i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQGED--IEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECCeE--EEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            899999999999999988766677766777666667676654  789999999887654      34444  37899999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |+|.++.+.   ...+..++.+  .+.|.++|+||+|+      .++.....+.+.+++..+++++++||++|+|++++|
T Consensus        79 VvDat~ler---~l~l~~ql~~--~~~PiIIVlNK~Dl------~~~~~i~~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~  147 (591)
T TIGR00437        79 VVDASNLER---NLYLTLQLLE--LGIPMILALNLVDE------AEKKGIRIDEEKLEERLGVPVVPTSATEGRGIERLK  147 (591)
T ss_pred             EecCCcchh---hHHHHHHHHh--cCCCEEEEEehhHH------HHhCCChhhHHHHHHHcCCCEEEEECCCCCCHHHHH
Confidence            999987442   2233333333  24566899999996      222333456788899999999999999999999999


Q ss_pred             HHHHHHH
Q 041042          242 KFITAKL  248 (268)
Q Consensus       242 ~~l~~~i  248 (268)
                      +++.+.+
T Consensus       148 ~~i~~~~  154 (591)
T TIGR00437       148 DAIRKAI  154 (591)
T ss_pred             HHHHHHh
Confidence            9998754

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.

>PRK00089 era GTPase Era; Reviewed

Probab=99.83  E-value=2.5e-19  Score=155.75  Aligned_cols=172  Identities=15%  Similarity=0.158  Sum_probs=115.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCC--CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc--------cchhh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQ--GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ--------DHLPV  151 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~--------~~~~~  151 (268)
                      +.-.|+++|.+|||||||+|++++..+..  ....|+. +.. ..+... ....+.+|||+|.....        .....
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~-~~i-~~i~~~-~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~   80 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTR-HRI-RGIVTE-DDAQIIFVDTPGIHKPKRALNRAMNKAAWS   80 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCccc-ccE-EEEEEc-CCceEEEEECCCCCCchhHHHHHHHHHHHH
Confidence            34679999999999999999999987532  1222222 111 112122 23678999999965432        22334


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-CeEEEEc
Q 041042          152 ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-ATLFFSS  230 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~S  230 (268)
                      .+.++|++++|+|+++..+- .....++.+.  ..+.|.++|+||+|+   ..  ......+....+.+..+ .+++++|
T Consensus        81 ~~~~~D~il~vvd~~~~~~~-~~~~i~~~l~--~~~~pvilVlNKiDl---~~--~~~~l~~~~~~l~~~~~~~~i~~iS  152 (292)
T PRK00089         81 SLKDVDLVLFVVDADEKIGP-GDEFILEKLK--KVKTPVILVLNKIDL---VK--DKEELLPLLEELSELMDFAEIVPIS  152 (292)
T ss_pred             HHhcCCEEEEEEeCCCCCCh-hHHHHHHHHh--hcCCCEEEEEECCcC---CC--CHHHHHHHHHHHHhhCCCCeEEEec
Confidence            57899999999999883221 1122223332  124566899999997   21  12334455666666554 6789999


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCccchhcccCCCCC
Q 041042          231 ATYNINVNKILKFITAKLFDIPWTLERNLTIGEP  264 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~~~~~~~~~~~~~~~~  264 (268)
                      |++|.|++++++++.+.+.+.++..+.+...+.+
T Consensus       153 A~~~~gv~~L~~~L~~~l~~~~~~y~~~~~td~~  186 (292)
T PRK00089        153 ALKGDNVDELLDVIAKYLPEGPPYYPEDQITDRP  186 (292)
T ss_pred             CCCCCCHHHHHHHHHHhCCCCCCCCCCCCCCCCC
Confidence            9999999999999999999888877777665554

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.83  E-value=1.5e-19  Score=169.41  Aligned_cols=154  Identities=13%  Similarity=0.141  Sum_probs=109.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ...+|+++|..++|||||+++|.+..+...+.+++..+.....+.+++.. .+.||||||++.|..++..++..+|++|+
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~~-~i~~iDTPGhe~F~~~r~rga~~aDiaIL  164 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDGK-MITFLDTPGHEAFTSMRARGAKVTDIVVL  164 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCCc-EEEEEECCCCcchhhHHHhhhccCCEEEE
Confidence            44799999999999999999999988876665555555544555554432 68899999999999999999999999999


Q ss_pred             EEeCCCh---hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHH---HHHHhC--CeEEEEcCCC
Q 041042          162 MFDLTSR---CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARA---YAKALN--ATLFFSSATY  233 (268)
Q Consensus       162 v~D~~~~---~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~---~~~~~~--~~~~~~Sa~~  233 (268)
                      |+|+++.   ++++.+    ..+..  .+.|.|+++||+|+.    ........+++..   ....++  .+++++||++
T Consensus       165 VVda~dgv~~qT~e~i----~~~~~--~~vPiIVviNKiDl~----~~~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAkt  234 (587)
T TIGR00487       165 VVAADDGVMPQTIEAI----SHAKA--ANVPIIVAINKIDKP----EANPDRVKQELSEYGLVPEDWGGDTIFVPVSALT  234 (587)
T ss_pred             EEECCCCCCHhHHHHH----HHHHH--cCCCEEEEEECcccc----cCCHHHHHHHHHHhhhhHHhcCCCceEEEEECCC
Confidence            9998873   333322    22222  245667999999963    1111111122211   122232  5799999999


Q ss_pred             CcCHHHHHHHHHH
Q 041042          234 NINVNKILKFITA  246 (268)
Q Consensus       234 ~~~i~~~f~~l~~  246 (268)
                      |.|++++|+++..
T Consensus       235 GeGI~eLl~~I~~  247 (587)
T TIGR00487       235 GDGIDELLDMILL  247 (587)
T ss_pred             CCChHHHHHhhhh
Confidence            9999999999874

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.

>cd01895 EngA2 EngA2 subfamily

Probab=99.83  E-value=4.6e-19  Score=141.12  Aligned_cols=156  Identities=19%  Similarity=0.287  Sum_probs=101.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc----------c-hh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD----------H-LP  150 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~----------~-~~  150 (268)
                      .+||+++|.+|+|||||++++.+..+. ....++...+.....+..++..  +.+|||+|......          . ..
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDGKK--YTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECCee--EEEEECCCCccccchhccHHHHHHHHHH
Confidence            479999999999999999999987632 2222322333333444555544  67999999754311          1 12


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh----CCeE
Q 041042          151 VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL----NATL  226 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~----~~~~  226 (268)
                      .++..+|++++|+|+++..+..... ++..+..  .+.++++|+||+|+.   ... ..........+.+..    +.++
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~~-~~~~~~~--~~~~~iiv~nK~Dl~---~~~-~~~~~~~~~~~~~~~~~~~~~~~  152 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDLR-IAGLILE--EGKALVIVVNKWDLV---EKD-SKTMKEFKKEIRRKLPFLDYAPI  152 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHHH-HHHHHHh--cCCCEEEEEeccccC---Ccc-HHHHHHHHHHHHhhcccccCCce
Confidence            3467899999999999987765543 3333332  245667999999972   211 011122222233333    4789


Q ss_pred             EEEcCCCCcCHHHHHHHHHHH
Q 041042          227 FFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      +++||+++.|++++++.+.+.
T Consensus       153 ~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         153 VFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             EEEeccCCCCHHHHHHHHHHh
Confidence            999999999999999998753

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.

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

Probab=99.82  E-value=3.2e-19  Score=147.03  Aligned_cols=160  Identities=16%  Similarity=0.158  Sum_probs=102.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC---CCCCC--CCcceeeEEEEEE-----------------------EC--C----
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK---EQGGS--PGEGLNMMDKTLL-----------------------VR--G----  129 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~---~~~~~--~t~~~~~~~~~~~-----------------------~~--~----  129 (268)
                      +.|+++|..|+|||||+..+.+-..   .....  -|+...+......                       ..  +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            3689999999999999999865411   00000  0111111110000                       00  1    


Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCCh----hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCc
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSR----CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPI  205 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~----~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~  205 (268)
                      ....+.||||+|++.|.......+..+|++++|+|+++.    .+++.+..|    ... ...++|||+||+|+   ...
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~----~~~-~~~~iiivvNK~Dl---~~~  152 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAAL----EIM-GLKHIIIVQNKIDL---VKE  152 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHH----HHc-CCCcEEEEEEchhc---cCH
Confidence            126789999999998877777777889999999999873    334433322    222 12345789999997   221


Q ss_pred             cchhchHHHHHHHHHHh---CCeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          206 DLQWTIASQARAYAKAL---NATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      .......++++++++..   +++++++||++|+|++++|+.|.+.+.+.
T Consensus       153 ~~~~~~~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~~~  201 (203)
T cd01888         153 EQALENYEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKIPTP  201 (203)
T ss_pred             HHHHHHHHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhCCCC
Confidence            21222245555555543   67899999999999999999998877553

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.82  E-value=4.1e-19  Score=162.62  Aligned_cols=148  Identities=16%  Similarity=0.253  Sum_probs=105.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc--------cccchhhhhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK--------AQDHLPVACK  154 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--------~~~~~~~~~~  154 (268)
                      .||+++|.+|||||||+++|.+.... ....+.++.+.....+.+++  ..+.+|||+|++.        +......+++
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~   79 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIE   79 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            58999999999999999999987641 22334344455556666666  5689999999886        2233456788


Q ss_pred             CCcEEEEEEeCCChhhHH--HHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe-EEEEcC
Q 041042          155 DSIAILFMFDLTSRCTLK--SVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT-LFFSSA  231 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~--~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa  231 (268)
                      .+|++|+|+|+++..+..  .+..|+...     +.|.|+|+||+|+.    .  .   .+...++ ...++. ++++||
T Consensus        80 ~ad~il~vvd~~~~~~~~~~~~~~~l~~~-----~~piilv~NK~D~~----~--~---~~~~~~~-~~lg~~~~~~iSa  144 (435)
T PRK00093         80 EADVILFVVDGRAGLTPADEEIAKILRKS-----NKPVILVVNKVDGP----D--E---EADAYEF-YSLGLGEPYPISA  144 (435)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCcEEEEEECccCc----c--c---hhhHHHH-HhcCCCCCEEEEe
Confidence            999999999998754432  334554432     45668999999952    1  1   1222222 345664 899999


Q ss_pred             CCCcCHHHHHHHHHHHH
Q 041042          232 TYNINVNKILKFITAKL  248 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i  248 (268)
                      ++|.|++++|+.+....
T Consensus       145 ~~g~gv~~l~~~I~~~~  161 (435)
T PRK00093        145 EHGRGIGDLLDAILEEL  161 (435)
T ss_pred             eCCCCHHHHHHHHHhhC
Confidence            99999999999998843

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.81  E-value=4.1e-19  Score=168.89  Aligned_cols=157  Identities=14%  Similarity=0.126  Sum_probs=110.8

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCccee--eEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLN--MMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ...+|+|+|..++|||||+++|.+..+......++..+  .+...+..++....+.||||||++.|..++..++..+|++
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDia  322 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIA  322 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEE
Confidence            44689999999999999999999887765544433322  2223333445568899999999999999999999999999


Q ss_pred             EEEEeCCCh---hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHH---HHHHhC--CeEEEEcC
Q 041042          160 LFMFDLTSR---CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARA---YAKALN--ATLFFSSA  231 (268)
Q Consensus       160 ilv~D~~~~---~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~---~~~~~~--~~~~~~Sa  231 (268)
                      |+|+|+++.   .+++.+.    .+..  .+.|.|||+||+|+.    ........+++..   +...++  ++++++||
T Consensus       323 ILVVDA~dGv~~QT~E~I~----~~k~--~~iPiIVViNKiDl~----~~~~e~v~~eL~~~~ll~e~~g~~vpvv~VSA  392 (742)
T CHL00189        323 ILIIAADDGVKPQTIEAIN----YIQA--ANVPIIVAINKIDKA----NANTERIKQQLAKYNLIPEKWGGDTPMIPISA  392 (742)
T ss_pred             EEEEECcCCCChhhHHHHH----HHHh--cCceEEEEEECCCcc----ccCHHHHHHHHHHhccchHhhCCCceEEEEEC
Confidence            999999874   3444332    2222  244557999999963    1111111222222   133344  68999999


Q ss_pred             CCCcCHHHHHHHHHHHH
Q 041042          232 TYNINVNKILKFITAKL  248 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i  248 (268)
                      ++|.|++++|+.|....
T Consensus       393 ktG~GIdeLle~I~~l~  409 (742)
T CHL00189        393 SQGTNIDKLLETILLLA  409 (742)
T ss_pred             CCCCCHHHHHHhhhhhh
Confidence            99999999999988754

>cd04163 Era Era subfamily

Probab=99.81  E-value=1.2e-18  Score=137.52  Aligned_cols=156  Identities=17%  Similarity=0.096  Sum_probs=102.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc--------chhhhhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD--------HLPVACK  154 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~--------~~~~~~~  154 (268)
                      ..+|+++|.+|+|||||++++.+..+....... .................+.+|||+|......        .....+.
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   81 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKP-QTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALK   81 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCC-CceeceEEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHH
Confidence            579999999999999999999987643221111 1111111122333456788999999754322        2344678


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh-CCeEEEEcCCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-NATLFFSSATY  233 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~  233 (268)
                      .+|++++|+|+++..+. ....+...+...  +.+.++|+||+|+.   .  ......+....+.... ..+++++|+++
T Consensus        82 ~~d~i~~v~d~~~~~~~-~~~~~~~~~~~~--~~~~iiv~nK~Dl~---~--~~~~~~~~~~~~~~~~~~~~~~~~s~~~  153 (168)
T cd04163          82 DVDLVLFVVDASEPIGE-GDEFILELLKKS--KTPVILVLNKIDLV---K--DKEDLLPLLEKLKELGPFAEIFPISALK  153 (168)
T ss_pred             hCCEEEEEEECCCccCc-hHHHHHHHHHHh--CCCEEEEEEchhcc---c--cHHHHHHHHHHHHhccCCCceEEEEecc
Confidence            99999999999987221 112333334332  45668999999972   1  1223344455555555 36899999999


Q ss_pred             CcCHHHHHHHHHHH
Q 041042          234 NINVNKILKFITAK  247 (268)
Q Consensus       234 ~~~i~~~f~~l~~~  247 (268)
                      +.|++++|+.|.+.
T Consensus       154 ~~~~~~l~~~l~~~  167 (168)
T cd04163         154 GENVDELLEEIVKY  167 (168)
T ss_pred             CCChHHHHHHHHhh
Confidence            99999999998764

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.81  E-value=6.3e-19  Score=169.80  Aligned_cols=161  Identities=16%  Similarity=0.169  Sum_probs=110.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc----------cccch-h
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK----------AQDHL-P  150 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~----------~~~~~-~  150 (268)
                      ..||+++|.+|||||||+++|++.++. ....++++.+.....+.+++..  +.+|||+|..+          |..+. .
T Consensus       450 ~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~--~~liDTaG~~~~~~~~~~~e~~~~~r~~  527 (712)
T PRK09518        450 LRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGED--WLFIDTAGIKRRQHKLTGAEYYSSLRTQ  527 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCCE--EEEEECCCcccCcccchhHHHHHHHHHH
Confidence            479999999999999999999998742 2333434456655666777766  55899999642          22221 2


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-HhCCeEEEE
Q 041042          151 VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-ALNATLFFS  229 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  229 (268)
                      .+++.+|++++|+|+++..+++.+.. +..+..  .+.|.|||+||+||   ...........+...... ...++.+++
T Consensus       528 ~~i~~advvilViDat~~~s~~~~~i-~~~~~~--~~~piIiV~NK~DL---~~~~~~~~~~~~~~~~l~~~~~~~ii~i  601 (712)
T PRK09518        528 AAIERSELALFLFDASQPISEQDLKV-MSMAVD--AGRALVLVFNKWDL---MDEFRRQRLERLWKTEFDRVTWARRVNL  601 (712)
T ss_pred             HHhhcCCEEEEEEECCCCCCHHHHHH-HHHHHH--cCCCEEEEEEchhc---CChhHHHHHHHHHHHhccCCCCCCEEEE
Confidence            34789999999999999988887653 344433  24566899999997   222111111222211111 123567999


Q ss_pred             cCCCCcCHHHHHHHHHHHHhcC
Q 041042          230 SATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ||++|.|++++|+.+.+.+.+.
T Consensus       602 SAktg~gv~~L~~~i~~~~~~~  623 (712)
T PRK09518        602 SAKTGWHTNRLAPAMQEALESW  623 (712)
T ss_pred             ECCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999887653

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.81  E-value=9.8e-19  Score=138.47  Aligned_cols=153  Identities=14%  Similarity=0.205  Sum_probs=105.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc----------ccccchhhhhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA----------KAQDHLPVACK  154 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~----------~~~~~~~~~~~  154 (268)
                      +|+++|.+|+|||||++.+.++.+.....++.+.+.....+..++   .+.+|||+|..          .+......|+.
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~   77 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLE   77 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHH
Confidence            489999999999999999997776666667666655444444443   78899999942          23444455554


Q ss_pred             ---CCcEEEEEEeCCChhh--HHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH--HhCCeEE
Q 041042          155 ---DSIAILFMFDLTSRCT--LKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK--ALNATLF  227 (268)
Q Consensus       155 ---~a~~vilv~D~~~~~s--~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~--~~~~~~~  227 (268)
                         ..+++++++|.++..+  ...+..|+...     ..+.++|+||+|+   .................+  ....+++
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~-----~~~vi~v~nK~D~---~~~~~~~~~~~~~~~~l~~~~~~~~~~  149 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEIDLEMLDWLEEL-----GIPFLVVLTKADK---LKKSELAKALKEIKKELKLFEIDPPII  149 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhHHHHHHHHHHc-----CCCEEEEEEchhc---CChHHHHHHHHHHHHHHHhccCCCceE
Confidence               3568899999876532  23344555443     3455799999997   333333333344444443  3456889


Q ss_pred             EEcCCCCcCHHHHHHHHHHHH
Q 041042          228 FSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       228 ~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      ++||+++.|+.++++.|.+.+
T Consensus       150 ~~Sa~~~~~~~~l~~~l~~~~  170 (170)
T cd01876         150 LFSSLKGQGIDELRALIEKWL  170 (170)
T ss_pred             EEecCCCCCHHHHHHHHHHhC
Confidence            999999999999999998753

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.81  E-value=1.1e-18  Score=167.32  Aligned_cols=155  Identities=12%  Similarity=0.120  Sum_probs=110.5

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      .....|+++|..++|||||+++|.+..+......++..+.....+.+++  ..+.||||+|++.|..++..+++.+|++|
T Consensus       288 ~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDiaI  365 (787)
T PRK05306        288 PRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIVV  365 (787)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEEE
Confidence            3457899999999999999999998877655554444344334455555  45889999999999999999999999999


Q ss_pred             EEEeCCCh---hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHH---HHHHHHhC--CeEEEEcCC
Q 041042          161 FMFDLTSR---CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQA---RAYAKALN--ATLFFSSAT  232 (268)
Q Consensus       161 lv~D~~~~---~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~--~~~~~~Sa~  232 (268)
                      +|||+++.   ++++.+    ..+..  .+.|+||++||+|+.    .........++   ..++..++  ++++++||+
T Consensus       366 LVVdAddGv~~qT~e~i----~~a~~--~~vPiIVviNKiDl~----~a~~e~V~~eL~~~~~~~e~~g~~vp~vpvSAk  435 (787)
T PRK05306        366 LVVAADDGVMPQTIEAI----NHAKA--AGVPIIVAINKIDKP----GANPDRVKQELSEYGLVPEEWGGDTIFVPVSAK  435 (787)
T ss_pred             EEEECCCCCCHhHHHHH----HHHHh--cCCcEEEEEECcccc----ccCHHHHHHHHHHhcccHHHhCCCceEEEEeCC
Confidence            99999873   343332    12222  245667999999962    11111122222   12344444  789999999


Q ss_pred             CCcCHHHHHHHHHHH
Q 041042          233 YNINVNKILKFITAK  247 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~  247 (268)
                      +|.||+++|++|...
T Consensus       436 tG~GI~eLle~I~~~  450 (787)
T PRK05306        436 TGEGIDELLEAILLQ  450 (787)
T ss_pred             CCCCchHHHHhhhhh
Confidence            999999999998754

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.80  E-value=1.5e-18  Score=166.95  Aligned_cols=153  Identities=14%  Similarity=0.101  Sum_probs=113.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc----------hhhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH----------LPVA  152 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~----------~~~~  152 (268)
                      .++|+++|.+|||||||+|++.+........+  |.+...+...+.....++++|||||...+...          ...+
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~p--GvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~   80 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWA--GVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCC--CceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHH
Confidence            57999999999999999999998765444444  45555455455555667899999998876432          2234


Q ss_pred             h--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEc
Q 041042          153 C--KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSS  230 (268)
Q Consensus       153 ~--~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  230 (268)
                      +  ..+|++++|+|.++.+.-   ..|..++.+.  +.|.++|.||+|+.      +++....+.+++.+.+|++++++|
T Consensus        81 l~~~~aD~vI~VvDat~ler~---l~l~~ql~e~--giPvIvVlNK~Dl~------~~~~i~id~~~L~~~LG~pVvpiS  149 (772)
T PRK09554         81 ILSGDADLLINVVDASNLERN---LYLTLQLLEL--GIPCIVALNMLDIA------EKQNIRIDIDALSARLGCPVIPLV  149 (772)
T ss_pred             HhccCCCEEEEEecCCcchhh---HHHHHHHHHc--CCCEEEEEEchhhh------hccCcHHHHHHHHHHhCCCEEEEE
Confidence            3  489999999999886542   2344455443  45668999999962      223345667888999999999999


Q ss_pred             CCCCcCHHHHHHHHHHHH
Q 041042          231 ATYNINVNKILKFITAKL  248 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i  248 (268)
                      |++|+|++++++.+.+..
T Consensus       150 A~~g~GIdeL~~~I~~~~  167 (772)
T PRK09554        150 STRGRGIEALKLAIDRHQ  167 (772)
T ss_pred             eecCCCHHHHHHHHHHhh
Confidence            999999999999987754

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.80  E-value=1.6e-18  Score=158.73  Aligned_cols=161  Identities=19%  Similarity=0.238  Sum_probs=107.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCC-CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc-----------h
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDE-KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH-----------L  149 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-----------~  149 (268)
                      ..+||+++|.+|+|||||++++++.. ......+++..+.....+..++..  +.+|||+|..+...+           .
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~~--~~lvDT~G~~~~~~~~~~~e~~~~~~~  249 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDGQK--YTLIDTAGIRRKGKVTEGVEKYSVIRT  249 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECCee--EEEEECCCCCCCcchhhHHHHHHHHHH
Confidence            46999999999999999999999865 223333433333333444455544  678999996443221           1


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHH-HHHHHhCCeEEE
Q 041042          150 PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQAR-AYAKALNATLFF  228 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  228 (268)
                      ..+++.+|++|+|+|+++..+.++.. +...+.+.  ..+.|+|+||+|+   ...+......+++. .+.....+++++
T Consensus       250 ~~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~~--~~~~ivv~NK~Dl---~~~~~~~~~~~~~~~~l~~~~~~~i~~  323 (435)
T PRK00093        250 LKAIERADVVLLVIDATEGITEQDLR-IAGLALEA--GRALVIVVNKWDL---VDEKTMEEFKKELRRRLPFLDYAPIVF  323 (435)
T ss_pred             HHHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHHc--CCcEEEEEECccC---CCHHHHHHHHHHHHHhcccccCCCEEE
Confidence            23678999999999999887776654 33333332  4566899999997   22221222222222 222223578999


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhc
Q 041042          229 SSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      +||++|.|++++|+.+.+...+
T Consensus       324 ~SA~~~~gv~~l~~~i~~~~~~  345 (435)
T PRK00093        324 ISALTGQGVDKLLEAIDEAYEN  345 (435)
T ss_pred             EeCCCCCCHHHHHHHHHHHHHH
Confidence            9999999999999998875543

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.80  E-value=3.1e-19  Score=133.32  Aligned_cols=159  Identities=15%  Similarity=0.210  Sum_probs=119.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ...++||.++|-.++|||||++++.+... .+..||.|  |..+.+..++ ++++++||.+||...+.+|..||.+.|++
T Consensus        14 t~rEirilllGldnAGKTT~LKqL~sED~-~hltpT~G--Fn~k~v~~~g-~f~LnvwDiGGqr~IRpyWsNYyenvd~l   89 (185)
T KOG0074|consen   14 TRREIRILLLGLDNAGKTTFLKQLKSEDP-RHLTPTNG--FNTKKVEYDG-TFHLNVWDIGGQRGIRPYWSNYYENVDGL   89 (185)
T ss_pred             CcceEEEEEEecCCCcchhHHHHHccCCh-hhccccCC--cceEEEeecC-cEEEEEEecCCccccchhhhhhhhccceE
Confidence            35679999999999999999999988764 56777777  4456666654 67899999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC-CCCce-EEEEeCCCCCCCCCccchhchHHHHHH----HHHHhCCeEEEEcCCC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN-QTAIP-IIIGTKFDDFIQLPIDLQWTIASQARA----YAKALNATLFFSSATY  233 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~-~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~Sa~~  233 (268)
                      |+|+|.+|..-|+++..-+-++..-. -...| .|.+||.|+.   ....   ..+.+..    ..+.....+-+|||.+
T Consensus        90 IyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdll---taa~---~eeia~klnl~~lrdRswhIq~csals  163 (185)
T KOG0074|consen   90 IYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLL---TAAK---VEEIALKLNLAGLRDRSWHIQECSALS  163 (185)
T ss_pred             EEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHH---hhcc---hHHHHHhcchhhhhhceEEeeeCcccc
Confidence            99999999999998876555554432 23344 5889999972   2211   1121111    1222234577799999


Q ss_pred             CcCHHHHHHHHHHHH
Q 041042          234 NINVNKILKFITAKL  248 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i  248 (268)
                      ++|+.+-.+++....
T Consensus       164 ~eg~~dg~~wv~sn~  178 (185)
T KOG0074|consen  164 LEGSTDGSDWVQSNP  178 (185)
T ss_pred             ccCccCcchhhhcCC
Confidence            999998888876543

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.79  E-value=1.2e-19  Score=140.08  Aligned_cols=159  Identities=19%  Similarity=0.195  Sum_probs=121.3

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCC---C----CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDE---K----EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACK  154 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~---~----~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~  154 (268)
                      ..+-|+|+|..++|||||+.+.....   +    .....+|+|.+...+  .+.  ...+.+||.+||+..+++|..||.
T Consensus        16 e~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i--~v~--~~~l~fwdlgGQe~lrSlw~~yY~   91 (197)
T KOG0076|consen   16 EDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTI--EVC--NAPLSFWDLGGQESLRSLWKKYYW   91 (197)
T ss_pred             hhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecce--eec--cceeEEEEcCChHHHHHHHHHHHH
Confidence            35889999999999999998875421   1    234567778766443  344  455889999999999999999999


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHH---HHHh---CCeE
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAY---AKAL---NATL  226 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~---~~~~---~~~~  226 (268)
                      .+|++|+++|++|++.|+....-++.+....  .+.|.++.+||.|+.+       .....++...   ++..   .+++
T Consensus        92 ~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~-------~~~~~El~~~~~~~e~~~~rd~~~  164 (197)
T KOG0076|consen   92 LAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQN-------AMEAAELDGVFGLAELIPRRDNPF  164 (197)
T ss_pred             HhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhh-------hhhHHHHHHHhhhhhhcCCccCcc
Confidence            9999999999999999999887777776653  3455568999999621       1122222222   3333   3678


Q ss_pred             EEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          227 FFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ..+||.+|+||++-..|+++.+..+
T Consensus       165 ~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  165 QPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             ccchhhhcccHHHHHHHHHHHHhhc
Confidence            8899999999999999999988776

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.79  E-value=2.8e-18  Score=156.89  Aligned_cols=150  Identities=17%  Similarity=0.247  Sum_probs=105.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCc--------cccccchhhhhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD--------AKAQDHLPVACKD  155 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~--------~~~~~~~~~~~~~  155 (268)
                      ||+++|.+|||||||+|+|.+.... ....+.+..+.....+..++.  .+.+|||+|.        +.+......+++.
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~~--~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~   78 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGGR--EFILIDTGGIEEDDDGLDKQIREQAEIAIEE   78 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECCe--EEEEEECCCCCCcchhHHHHHHHHHHHHHhh
Confidence            5899999999999999999987631 222333334444455556665  4889999996        3344556667899


Q ss_pred             CcEEEEEEeCCChhhHHH--HHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEcCC
Q 041042          156 SIAILFMFDLTSRCTLKS--VIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSSAT  232 (268)
Q Consensus       156 a~~vilv~D~~~~~s~~~--~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~  232 (268)
                      +|++++|+|..+..+...  +..|+.   +.  +.|.++|+||+|+.   ..   ..   ...+ ...+++ +++++||+
T Consensus        79 ad~vl~vvD~~~~~~~~d~~i~~~l~---~~--~~piilVvNK~D~~---~~---~~---~~~~-~~~lg~~~~~~vSa~  143 (429)
T TIGR03594        79 ADVILFVVDGREGLTPEDEEIAKWLR---KS--GKPVILVANKIDGK---KE---DA---VAAE-FYSLGFGEPIPISAE  143 (429)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHHHHHH---Hh--CCCEEEEEECccCC---cc---cc---cHHH-HHhcCCCCeEEEeCC
Confidence            999999999987544332  334443   22  45668999999962   11   11   1122 335566 79999999


Q ss_pred             CCcCHHHHHHHHHHHHhcC
Q 041042          233 YNINVNKILKFITAKLFDI  251 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~~  251 (268)
                      +|.|++++++.+.+.+...
T Consensus       144 ~g~gv~~ll~~i~~~l~~~  162 (429)
T TIGR03594       144 HGRGIGDLLDAILELLPEE  162 (429)
T ss_pred             cCCChHHHHHHHHHhcCcc
Confidence            9999999999999887553

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.79  E-value=2.7e-18  Score=161.69  Aligned_cols=158  Identities=11%  Similarity=0.140  Sum_probs=114.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC--CC-----CCC------CCCcceeeEEEEEEE-----CCeEEEEEEEeCCCcccc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE--KE-----QGG------SPGEGLNMMDKTLLV-----RGARISYSIWEVTGDAKA  145 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~--~~-----~~~------~~t~~~~~~~~~~~~-----~~~~~~l~i~Dt~G~~~~  145 (268)
                      -+|+++|..++|||||+.+|+...  +.     ..+      ..+.|.++....+.+     +++.+.+++|||+|+++|
T Consensus         8 RNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~dF   87 (600)
T PRK05433          8 RNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDF   87 (600)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHHH
Confidence            489999999999999999997631  11     111      112344444433332     566789999999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT  225 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (268)
                      ...+..+++.+|++|+|+|+++....+....|.....   .+.+.|+|+||+|+.    ...   ......++.+..++.
T Consensus        88 ~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~---~~lpiIvViNKiDl~----~a~---~~~v~~ei~~~lg~~  157 (600)
T PRK05433         88 SYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE---NDLEIIPVLNKIDLP----AAD---PERVKQEIEDVIGID  157 (600)
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH---CCCCEEEEEECCCCC----ccc---HHHHHHHHHHHhCCC
Confidence            9889999999999999999998766666666654332   244567999999962    111   122233444555654


Q ss_pred             ---EEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          226 ---LFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       226 ---~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                         ++++||++|.|+++++++|.+.+...
T Consensus       158 ~~~vi~iSAktG~GI~~Ll~~I~~~lp~P  186 (600)
T PRK05433        158 ASDAVLVSAKTGIGIEEVLEAIVERIPPP  186 (600)
T ss_pred             cceEEEEecCCCCCHHHHHHHHHHhCccc
Confidence               89999999999999999999887654

>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=99.79  E-value=7.2e-18  Score=141.71  Aligned_cols=150  Identities=18%  Similarity=0.218  Sum_probs=99.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc----c---chhhhhcCCc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ----D---HLPVACKDSI  157 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~----~---~~~~~~~~a~  157 (268)
                      +|+++|.+|||||||++++.+........+....+.....+.+++  ..+++|||+|.....    .   ....+++++|
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~~--~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad   79 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKG--AKIQLLDLPGIIEGAADGKGRGRQVIAVARTAD   79 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEECC--eEEEEEECCCcccccccchhHHHHHHHhhccCC
Confidence            799999999999999999998763222222222333344555555  458899999975432    1   1234689999


Q ss_pred             EEEEEEeCCChh-hHHHHHHHHHHH-----------------------------------------HHh---C-------
Q 041042          158 AILFMFDLTSRC-TLKSVIRWYQQA-----------------------------------------RKC---N-------  185 (268)
Q Consensus       158 ~vilv~D~~~~~-s~~~~~~~~~~i-----------------------------------------~~~---~-------  185 (268)
                      ++++|+|+++.+ ..+.+.+.++..                                         .++   +       
T Consensus        80 ~il~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~  159 (233)
T cd01896          80 LILMVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIRE  159 (233)
T ss_pred             EEEEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEcc
Confidence            999999998765 344333333211                                         000   0       


Q ss_pred             ---------------CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          186 ---------------QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       186 ---------------~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                                     ...|.++|+||+|+   .+       .+++..+++.  ..++++||++|.|++++|+.+.+.+
T Consensus       160 ~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl---~~-------~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         160 DITVDDLIDVIEGNRVYIPCLYVYNKIDL---IS-------IEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             CCCHHHHHHHHhCCceEeeEEEEEECccC---CC-------HHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                           01234699999996   21       2344455553  4589999999999999999998765

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.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.78  E-value=7.6e-19  Score=158.38  Aligned_cols=166  Identities=17%  Similarity=0.211  Sum_probs=123.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....++|+++|+.||||||||..++.++|.+...+-...-...  ..+.-..+...+.||+..+.-+.....-++.||++
T Consensus         6 t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IP--advtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi   83 (625)
T KOG1707|consen    6 TLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIP--ADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVI   83 (625)
T ss_pred             CccceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccC--CccCcCcCceEEEecccccchhHHHHHHHhhcCEE
Confidence            5567999999999999999999999999876655422111111  12222344578999987666556667788999999


Q ss_pred             EEEEeCCChhhHHHHH-HHHHHHHHhC---CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-C-eEEEEcCCC
Q 041042          160 LFMFDLTSRCTLKSVI-RWYQQARKCN---QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-A-TLFFSSATY  233 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~-~~~~~i~~~~---~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~Sa~~  233 (268)
                      .+||+++++++++.+. .|+..+++..   .+.|+||||||+|+.   ..... ........++.++. + ..++|||++
T Consensus        84 ~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~---~~~~~-s~e~~~~pim~~f~EiEtciecSA~~  159 (625)
T KOG1707|consen   84 CLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNG---DNENN-SDEVNTLPIMIAFAEIETCIECSALT  159 (625)
T ss_pred             EEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCc---ccccc-chhHHHHHHHHHhHHHHHHHhhhhhh
Confidence            9999999999999998 8999999987   677889999999973   22211 11223344444442 2 369999999


Q ss_pred             CcCHHHHHHHHHHHHhcC
Q 041042          234 NINVNKILKFITAKLFDI  251 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~  251 (268)
                      ..|+.|+|+...+.++..
T Consensus       160 ~~n~~e~fYyaqKaVihP  177 (625)
T KOG1707|consen  160 LANVSELFYYAQKAVIHP  177 (625)
T ss_pred             hhhhHhhhhhhhheeecc
Confidence            999999999988877654

>cd00880 Era_like Era (E

Probab=99.78  E-value=6e-18  Score=132.12  Aligned_cols=153  Identities=16%  Similarity=0.159  Sum_probs=101.7

Q ss_pred             EEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccch-------hhhhcCCcEE
Q 041042           88 LLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHL-------PVACKDSIAI  159 (268)
Q Consensus        88 vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-------~~~~~~a~~v  159 (268)
                      ++|.+|+|||||++++.+..+. .....+.............. ...+.+|||+|...+....       ..+++.+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGP-LGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecC-CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            5899999999999999987543 22222222222222322221 4568999999987764433       3478899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchH-HHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIA-SQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      ++|+|.++..+..... |......  ...+.++|+||+|+   .......... ..........+++++++||+++.|++
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~~~--~~~~~ivv~nK~D~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~  153 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELLRE--RGKPVLLVLNKIDL---LPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGID  153 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHHh--cCCeEEEEEEcccc---CChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHH
Confidence            9999999988776654 3333322  34556899999997   2222111111 12233344457889999999999999


Q ss_pred             HHHHHHHHH
Q 041042          239 KILKFITAK  247 (268)
Q Consensus       239 ~~f~~l~~~  247 (268)
                      ++++++.+.
T Consensus       154 ~l~~~l~~~  162 (163)
T cd00880         154 ELREALIEA  162 (163)
T ss_pred             HHHHHHHhh
Confidence            999999865

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.78  E-value=1.1e-17  Score=161.36  Aligned_cols=156  Identities=16%  Similarity=0.177  Sum_probs=103.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc--------cccchhhh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK--------AQDHLPVA  152 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--------~~~~~~~~  152 (268)
                      ...+|+++|.+|||||||+|+|++.... ....++++.+........++.  .+.+|||+|.+.        +......+
T Consensus       274 ~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~~~~~~~~~  351 (712)
T PRK09518        274 AVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAGT--DFKLVDTGGWEADVEGIDSAIASQAQIA  351 (712)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECCE--EEEEEeCCCcCCCCccHHHHHHHHHHHH
Confidence            3578999999999999999999987641 223343333433333344443  578999999763        23334567


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          153 CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      ++.+|++|+|+|+++.-+... ..|.+.++.  .+.|+|+|+||+|+.    .  ..  ......+....+ ..+++||+
T Consensus       352 ~~~aD~iL~VvDa~~~~~~~d-~~i~~~Lr~--~~~pvIlV~NK~D~~----~--~~--~~~~~~~~lg~~-~~~~iSA~  419 (712)
T PRK09518        352 VSLADAVVFVVDGQVGLTSTD-ERIVRMLRR--AGKPVVLAVNKIDDQ----A--SE--YDAAEFWKLGLG-EPYPISAM  419 (712)
T ss_pred             HHhCCEEEEEEECCCCCCHHH-HHHHHHHHh--cCCCEEEEEECcccc----c--ch--hhHHHHHHcCCC-CeEEEECC
Confidence            899999999999976422111 245555543  355668999999962    1  11  111122222223 35789999


Q ss_pred             CCcCHHHHHHHHHHHHhcC
Q 041042          233 YNINVNKILKFITAKLFDI  251 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~~  251 (268)
                      +|.||+++|+++++.+.+.
T Consensus       420 ~g~GI~eLl~~i~~~l~~~  438 (712)
T PRK09518        420 HGRGVGDLLDEALDSLKVA  438 (712)
T ss_pred             CCCCchHHHHHHHHhcccc
Confidence            9999999999999988653

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.78  E-value=6.8e-19  Score=131.89  Aligned_cols=161  Identities=18%  Similarity=0.204  Sum_probs=118.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      .+.+++++|-.|+|||+++.++.-.+. ....||+|.+..  +  +..++.++++||.+|+-..+..|+.||.+.|++|+
T Consensus        17 ~e~rililgldGaGkttIlyrlqvgev-vttkPtigfnve--~--v~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIy   91 (182)
T KOG0072|consen   17 REMRILILGLDGAGKTTILYRLQVGEV-VTTKPTIGFNVE--T--VPYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIY   91 (182)
T ss_pred             cceEEEEeeccCCCeeEEEEEcccCcc-cccCCCCCcCcc--c--cccccccceeeEccCcccccHHHHHHhcccceEEE
Confidence            578999999999999999999876665 467788886654  3  33477889999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHH-HHHHHHhC-CCCceEEEEeCCCCCCCCCccchh--chHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          162 MFDLTSRCTLKSVIRW-YQQARKCN-QTAIPIIIGTKFDDFIQLPIDLQW--TIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~-~~~i~~~~-~~~~~ilvgnK~Dl~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+|.+|++........ +..+.+.. .....+|++||.|.    +....+  +...-..+-.+..-+.++++||.+|+|+
T Consensus        92 VVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~----~~~~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gl  167 (182)
T KOG0072|consen   92 VVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDY----SGALTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGL  167 (182)
T ss_pred             EEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccc----hhhhhHHHHHHHhChHHHhhheeEEEeeccccccCC
Confidence            9999999877655533 33333322 23555799999995    221111  1111111112233478999999999999


Q ss_pred             HHHHHHHHHHHhcC
Q 041042          238 NKILKFITAKLFDI  251 (268)
Q Consensus       238 ~~~f~~l~~~i~~~  251 (268)
                      +++++|+.+.+...
T Consensus       168 d~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  168 DPAMDWLQRPLKSR  181 (182)
T ss_pred             cHHHHHHHHHHhcc
Confidence            99999999877653

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.77  E-value=6.5e-18  Score=158.13  Aligned_cols=158  Identities=13%  Similarity=0.135  Sum_probs=103.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCC----CCCcceeeEEEEEE------------ECCeEEEEEEEeCCCcccccc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGG----SPGEGLNMMDKTLL------------VRGARISYSIWEVTGDAKAQD  147 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~----~~t~~~~~~~~~~~------------~~~~~~~l~i~Dt~G~~~~~~  147 (268)
                      --|+++|.+++|||||+++|.+..+....    ..++|..+......            ++.....+.+|||||++.|..
T Consensus         5 piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~   84 (590)
T TIGR00491         5 PIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTN   84 (590)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHH
Confidence            35899999999999999999988765432    33444443322110            011112388999999999999


Q ss_pred             chhhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCcc-----------chhchHH
Q 041042          148 HLPVACKDSIAILFMFDLTS---RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPID-----------LQWTIAS  213 (268)
Q Consensus       148 ~~~~~~~~a~~vilv~D~~~---~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~-----------~~~~~~~  213 (268)
                      ++..+++.+|++++|||+++   .++++.+..+    ..  .+.|.||++||+|+.......           ....+..
T Consensus        85 l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l----~~--~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v~~  158 (590)
T TIGR00491        85 LRKRGGALADLAILIVDINEGFKPQTQEALNIL----RM--YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQVQQ  158 (590)
T ss_pred             HHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHH----HH--cCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHHHH
Confidence            99999999999999999987   5566554322    22  245668999999974211100           0000000


Q ss_pred             --------HHHHHHH------------Hh--CCeEEEEcCCCCcCHHHHHHHHHHH
Q 041042          214 --------QARAYAK------------AL--NATLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       214 --------~~~~~~~------------~~--~~~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                              ...++++            .+  .++++.+||++|+|+++++.++...
T Consensus       159 ~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l  214 (590)
T TIGR00491       159 NLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGL  214 (590)
T ss_pred             HHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHH
Confidence                    0111221            11  3688999999999999999987643

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=99.76  E-value=4.3e-18  Score=155.31  Aligned_cols=157  Identities=11%  Similarity=0.053  Sum_probs=103.8

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcC--CCCC-----------------------------CCCCCcceeeEEEEEEECC
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGD--EKEQ-----------------------------GGSPGEGLNMMDKTLLVRG  129 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~--~~~~-----------------------------~~~~t~~~~~~~~~~~~~~  129 (268)
                      ...++|+++|..++|||||+.+|+..  .+..                             ....+++.+..  ...+..
T Consensus         5 ~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~--~~~~~~   82 (426)
T TIGR00483         5 KEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVA--HWKFET   82 (426)
T ss_pred             CceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEE--EEEEcc
Confidence            34689999999999999999999752  1211                             01112233333  333444


Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHH--HHHHHHHHhCCCCceEEEEeCCCCCCCCCccc
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVI--RWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL  207 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~--~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~  207 (268)
                      ..+.+++|||+|+++|.......+..+|++|+|+|+++.+++....  .++. +.......+.|||+||+|+... ..+.
T Consensus        83 ~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~-~~~~~~~~~iIVviNK~Dl~~~-~~~~  160 (426)
T TIGR00483        83 DKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAF-LARTLGINQLIVAINKMDSVNY-DEEE  160 (426)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHH-HHHHcCCCeEEEEEEChhccCc-cHHH
Confidence            5577999999999988766666778999999999999876432211  1122 2222222334689999997310 1112


Q ss_pred             hhchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHHHH
Q 041042          208 QWTIASQARAYAKALN-----ATLFFSSATYNINVNKIL  241 (268)
Q Consensus       208 ~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~~f  241 (268)
                      .....++++++++..+     ++++++||++|.|+.+.+
T Consensus       161 ~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       161 FEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             HHHHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence            2234677788888776     579999999999998744

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.

>PRK10218 GTP-binding protein; Provisional

Probab=99.75  E-value=3.7e-17  Score=153.55  Aligned_cols=162  Identities=14%  Similarity=0.134  Sum_probs=118.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc--CCCCCC------------CCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG--DEKEQG------------GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~--~~~~~~------------~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      ..+|+++|..++|||||+.+|+.  +.|...            ...+.|.++..+...+....+++++|||+|+..|...
T Consensus         5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~   84 (607)
T PRK10218          5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGE   84 (607)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHHH
Confidence            36899999999999999999986  334322            1235677777777777777789999999999999999


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-------
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-------  221 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-------  221 (268)
                      +..+++.+|++|+|+|+++....+. ..++..+..  .+.|+|++.||+|+.    ........+++..+...       
T Consensus        85 v~~~l~~aDg~ILVVDa~~G~~~qt-~~~l~~a~~--~gip~IVviNKiD~~----~a~~~~vl~ei~~l~~~l~~~~~~  157 (607)
T PRK10218         85 VERVMSMVDSVLLVVDAFDGPMPQT-RFVTKKAFA--YGLKPIVVINKVDRP----GARPDWVVDQVFDLFVNLDATDEQ  157 (607)
T ss_pred             HHHHHHhCCEEEEEEecccCccHHH-HHHHHHHHH--cCCCEEEEEECcCCC----CCchhHHHHHHHHHHhccCccccc
Confidence            9999999999999999987533322 333333333  245668999999963    22222333444444322       


Q ss_pred             hCCeEEEEcCCCCc----------CHHHHHHHHHHHHhcC
Q 041042          222 LNATLFFSSATYNI----------NVNKILKFITAKLFDI  251 (268)
Q Consensus       222 ~~~~~~~~Sa~~~~----------~i~~~f~~l~~~i~~~  251 (268)
                      ..++++.+||++|.          ++..+|+.|++.+...
T Consensus       158 ~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~P  197 (607)
T PRK10218        158 LDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPAP  197 (607)
T ss_pred             cCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCCCC
Confidence            35779999999998          5889999988887644

>COG1159 Era GTPase [General function prediction only]

Probab=99.75  E-value=4.5e-17  Score=137.27  Aligned_cols=174  Identities=19%  Similarity=0.196  Sum_probs=117.6

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCC--CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc--------chh
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEK--EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD--------HLP  150 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~--------~~~  150 (268)
                      .+.--|+++|.||||||||+|++++.+.  .+....|+- ......++.  ....+.+.||||-..-..        ...
T Consensus         4 ~ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR-~~I~GI~t~--~~~QiIfvDTPGih~pk~~l~~~m~~~a~   80 (298)
T COG1159           4 FKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTR-NRIRGIVTT--DNAQIIFVDTPGIHKPKHALGELMNKAAR   80 (298)
T ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhh-hheeEEEEc--CCceEEEEeCCCCCCcchHHHHHHHHHHH
Confidence            4456799999999999999999999874  333333332 221122222  356688999999554322        234


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-CeEEEE
Q 041042          151 VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-ATLFFS  229 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  229 (268)
                      ..+.++|++++|.|+++...-. -...++.++.  .+.|+|++.||+|.   ...+  .........+..... ...+.+
T Consensus        81 ~sl~dvDlilfvvd~~~~~~~~-d~~il~~lk~--~~~pvil~iNKID~---~~~~--~~l~~~~~~~~~~~~f~~ivpi  152 (298)
T COG1159          81 SALKDVDLILFVVDADEGWGPG-DEFILEQLKK--TKTPVILVVNKIDK---VKPK--TVLLKLIAFLKKLLPFKEIVPI  152 (298)
T ss_pred             HHhccCcEEEEEEeccccCCcc-HHHHHHHHhh--cCCCeEEEEEcccc---CCcH--HHHHHHHHHHHhhCCcceEEEe
Confidence            4578999999999998743321 1223444443  34577899999996   2221  111222333333333 368889


Q ss_pred             cCCCCcCHHHHHHHHHHHHhcCccchhcccCCCCCC
Q 041042          230 SATYNINVNKILKFITAKLFDIPWTLERNLTIGEPI  265 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i~~~~~~~~~~~~~~~~i  265 (268)
                      ||++|.|++.+.+.+...+.+.++.++++..++.|.
T Consensus       153 SA~~g~n~~~L~~~i~~~Lpeg~~~yp~d~itD~~~  188 (298)
T COG1159         153 SALKGDNVDTLLEIIKEYLPEGPWYYPEDQITDRPE  188 (298)
T ss_pred             eccccCCHHHHHHHHHHhCCCCCCcCChhhccCChH
Confidence            999999999999999999999999999988887764

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.75  E-value=1.1e-17  Score=152.77  Aligned_cols=159  Identities=12%  Similarity=0.086  Sum_probs=100.8

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC--CCCC------------------------C---CCCcceeeEEEEEEECCeE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE--KEQG------------------------G---SPGEGLNMMDKTLLVRGAR  131 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~--~~~~------------------------~---~~t~~~~~~~~~~~~~~~~  131 (268)
                      ...++|+++|..++|||||+++|+...  ....                        .   ...-|.+.......+....
T Consensus         4 k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~   83 (425)
T PRK12317          4 KPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDK   83 (425)
T ss_pred             CCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCC
Confidence            346899999999999999999998432  1000                        0   0011333333333444456


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhc
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWT  210 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~  210 (268)
                      +.+.+|||||+++|.......++.+|++|+|+|+++..++... ..++..+... ...++|||+||+|+... ..+....
T Consensus        84 ~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~~~~iivviNK~Dl~~~-~~~~~~~  161 (425)
T PRK12317         84 YYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL-GINQLIVAINKMDAVNY-DEKRYEE  161 (425)
T ss_pred             eEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc-CCCeEEEEEEccccccc-cHHHHHH
Confidence            7799999999998866555557899999999999873222221 1222223222 22234689999997310 0111123


Q ss_pred             hHHHHHHHHHHhC-----CeEEEEcCCCCcCHHHHH
Q 041042          211 IASQARAYAKALN-----ATLFFSSATYNINVNKIL  241 (268)
Q Consensus       211 ~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~~f  241 (268)
                      ..+++.++++..+     ++++++||++|.|+++.+
T Consensus       162 ~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~  197 (425)
T PRK12317        162 VKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKS  197 (425)
T ss_pred             HHHHHHHHHHhhCCCcCcceEEEeecccCCCccccc
Confidence            4567777777666     468999999999999754

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.75  E-value=6.4e-17  Score=126.79  Aligned_cols=156  Identities=15%  Similarity=0.186  Sum_probs=115.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCC--------CCCC----CCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEK--------EQGG----SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD  147 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~--------~~~~----~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~  147 (268)
                      .....||+|+|.-++||||+++++.....        ...+    ..|+..+|....+  + ....+.++|||||++|.-
T Consensus         7 k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~--~-~~~~v~LfgtPGq~RF~f   83 (187)
T COG2229           7 KMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIEL--D-EDTGVHLFGTPGQERFKF   83 (187)
T ss_pred             cccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEE--c-CcceEEEecCCCcHHHHH
Confidence            56678999999999999999999987652        1111    1344445443332  2 234577999999999999


Q ss_pred             chhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh--CCe
Q 041042          148 HLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL--NAT  225 (268)
Q Consensus       148 ~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~--~~~  225 (268)
                      +|..+.+++.+.|++.|.+....| .....++.+....+ .|.+|..||.||+...+.       ++++++.+..  +.+
T Consensus        84 m~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~~-ip~vVa~NK~DL~~a~pp-------e~i~e~l~~~~~~~~  154 (187)
T COG2229          84 MWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRNP-IPVVVAINKQDLFDALPP-------EKIREALKLELLSVP  154 (187)
T ss_pred             HHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhccC-CCEEEEeeccccCCCCCH-------HHHHHHHHhccCCCc
Confidence            999999999999999999999998 44555555555443 344688999998544443       4444444444  889


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHH
Q 041042          226 LFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      .++++|..+++..+.++.+...
T Consensus       155 vi~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         155 VIEIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             eeeeecccchhHHHHHHHHHhh
Confidence            9999999999999999888765

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.74  E-value=7e-17  Score=152.46  Aligned_cols=156  Identities=15%  Similarity=0.096  Sum_probs=105.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC---CCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD---EKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~---~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      -|.++|..++|||||+++|.+.   .+.+.....+..+.....+...+ ...+.+|||||+++|.......+.++|++++
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~-g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lL   80 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPD-GRVLGFIDVPGHEKFLSNMLAGVGGIDHALL   80 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCC-CcEEEEEECCCHHHHHHHHHHHhhcCCEEEE
Confidence            4789999999999999999863   33333323333333222232222 2247899999999997666677889999999


Q ss_pred             EEeCCC---hhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhC---CeEEEEcCCCC
Q 041042          162 MFDLTS---RCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALN---ATLFFSSATYN  234 (268)
Q Consensus       162 v~D~~~---~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~Sa~~~  234 (268)
                      |+|+++   +++.+.+.    .+...  +.+. |||+||+|+   .+.+......+++.++....+   ++++++||++|
T Consensus        81 VVda~eg~~~qT~ehl~----il~~l--gi~~iIVVlNKiDl---v~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG  151 (614)
T PRK10512         81 VVACDDGVMAQTREHLA----ILQLT--GNPMLTVALTKADR---VDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEG  151 (614)
T ss_pred             EEECCCCCcHHHHHHHH----HHHHc--CCCeEEEEEECCcc---CCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCC
Confidence            999987   34444332    22222  3344 699999997   222222333566677766655   68999999999


Q ss_pred             cCHHHHHHHHHHHHhc
Q 041042          235 INVNKILKFITAKLFD  250 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~  250 (268)
                      .|++++++.|.+....
T Consensus       152 ~gI~~L~~~L~~~~~~  167 (614)
T PRK10512        152 RGIDALREHLLQLPER  167 (614)
T ss_pred             CCCHHHHHHHHHhhcc
Confidence            9999999999865443

>cd04167 Snu114p Snu114p subfamily

Probab=99.74  E-value=2.1e-17  Score=137.27  Aligned_cols=151  Identities=17%  Similarity=0.310  Sum_probs=99.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCC-----------------CCCcceeeEEEEEEE-----CCeEEEEEEEeCCCc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGG-----------------SPGEGLNMMDKTLLV-----RGARISYSIWEVTGD  142 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~-----------------~~t~~~~~~~~~~~~-----~~~~~~l~i~Dt~G~  142 (268)
                      +|+++|..++|||||+++|+........                 ....|.++....+.+     ++..+.+++|||+|+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            6899999999999999999875432210                 011222332222222     356788999999999


Q ss_pred             cccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCC---CCCccc----hhchHHHH
Q 041042          143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFI---QLPIDL----QWTIASQA  215 (268)
Q Consensus       143 ~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~---~~~~~~----~~~~~~~~  215 (268)
                      +.|......++..+|++++|+|+++..++.. ..|+..+...  +.|.++|+||+|+..   .++...    -....+++
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~~--~~p~iiviNK~D~~~~~~~l~~~~~~~~l~~~i~~~  158 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAILE--GLPIVLVINKIDRLILELKLPPNDAYFKLRHIIDEV  158 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHHc--CCCEEEEEECcccCcccccCCHHHHHHHHHHHHHHH
Confidence            9998888889999999999999988776643 3454544332  355689999999631   111111    11123455


Q ss_pred             HHHHHHhCC-------e----EEEEcCCCCcCHH
Q 041042          216 RAYAKALNA-------T----LFFSSATYNINVN  238 (268)
Q Consensus       216 ~~~~~~~~~-------~----~~~~Sa~~~~~i~  238 (268)
                      ..++...+.       |    +++.|++.+.+..
T Consensus       159 n~~~~~~~~~~~~~~~p~~~nv~~~s~~~~w~~~  192 (213)
T cd04167         159 NNIIASFSTTLSFLFSPENGNVCFASSKFGFCFT  192 (213)
T ss_pred             HHHHHHhcCCCceEeccCCCeEEEEecCCCeEEe
Confidence            556655543       2    6789999988765

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.

>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=99.74  E-value=1.7e-17  Score=135.07  Aligned_cols=160  Identities=13%  Similarity=0.137  Sum_probs=106.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCC------------------CCCcceeeEEEEEEECCeEEEEEEEeCCCccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGG------------------SPGEGLNMMDKTLLVRGARISYSIWEVTGDAK  144 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~------------------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~  144 (268)
                      ..+|+++|..++|||||+.+|....-....                  ...+..+.....+..+.....+.++||||+..
T Consensus         3 ~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~~   82 (188)
T PF00009_consen    3 IRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHED   82 (188)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSHH
T ss_pred             EEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeecccccccc
Confidence            478999999999999999999754311100                  00111112222222124556789999999999


Q ss_pred             cccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHH-HHHHHhC
Q 041042          145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQAR-AYAKALN  223 (268)
Q Consensus       145 ~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~  223 (268)
                      |.......++.+|++|+|+|+.+.-.-.. ...+..+...  +.|.|+|.||+|+   . ........++.. .+.+..+
T Consensus        83 f~~~~~~~~~~~D~ailvVda~~g~~~~~-~~~l~~~~~~--~~p~ivvlNK~D~---~-~~~~~~~~~~~~~~l~~~~~  155 (188)
T PF00009_consen   83 FIKEMIRGLRQADIAILVVDANDGIQPQT-EEHLKILREL--GIPIIVVLNKMDL---I-EKELEEIIEEIKEKLLKEYG  155 (188)
T ss_dssp             HHHHHHHHHTTSSEEEEEEETTTBSTHHH-HHHHHHHHHT--T-SEEEEEETCTS---S-HHHHHHHHHHHHHHHHHHTT
T ss_pred             eeecccceecccccceeeeeccccccccc-cccccccccc--ccceEEeeeeccc---h-hhhHHHHHHHHHHHhccccc
Confidence            98888788999999999999986544332 2233334332  3456899999997   2 222222333333 5555543


Q ss_pred             ------CeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          224 ------ATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       224 ------~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                            ++++.+||++|.|++++++.|.+.+.
T Consensus       156 ~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  156 ENGEEIVPVIPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             STTTSTEEEEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             cCccccceEEEEecCCCCCHHHHHHHHHHhCc
Confidence                  57999999999999999999988753

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 ....

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.73  E-value=4.7e-17  Score=152.91  Aligned_cols=160  Identities=13%  Similarity=0.173  Sum_probs=116.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC--CCCCCC------------CCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchh
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD--EKEQGG------------SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLP  150 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~--~~~~~~------------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~  150 (268)
                      +|+++|..++|||||+.+|+..  .+....            ....|.++..+...+....+++++|||||+.+|.....
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~   82 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVE   82 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHH
Confidence            6899999999999999999862  332211            11235556555555555667899999999999998889


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-------HhC
Q 041042          151 VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-------ALN  223 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-------~~~  223 (268)
                      .+++.+|++++|+|+++. .......|+..+...  +.|+|||+||+|+.    ........+++..+..       ...
T Consensus        83 ~~l~~aD~alLVVDa~~G-~~~qT~~~l~~a~~~--~ip~IVviNKiD~~----~a~~~~v~~ei~~l~~~~g~~~e~l~  155 (594)
T TIGR01394        83 RVLGMVDGVLLLVDASEG-PMPQTRFVLKKALEL--GLKPIVVINKIDRP----SARPDEVVDEVFDLFAELGADDEQLD  155 (594)
T ss_pred             HHHHhCCEEEEEEeCCCC-CcHHHHHHHHHHHHC--CCCEEEEEECCCCC----CcCHHHHHHHHHHHHHhhcccccccc
Confidence            999999999999999863 344455666666553  45668999999962    2222233444444443       245


Q ss_pred             CeEEEEcCCCCc----------CHHHHHHHHHHHHhcC
Q 041042          224 ATLFFSSATYNI----------NVNKILKFITAKLFDI  251 (268)
Q Consensus       224 ~~~~~~Sa~~~~----------~i~~~f~~l~~~i~~~  251 (268)
                      ++++.+||++|.          |+..+|+.+++.+...
T Consensus       156 ~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P  193 (594)
T TIGR01394       156 FPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAP  193 (594)
T ss_pred             CcEEechhhcCcccccCcccccCHHHHHHHHHHhCCCC
Confidence            789999999996          7999999999887654

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.73  E-value=1.2e-16  Score=150.13  Aligned_cols=158  Identities=12%  Similarity=0.151  Sum_probs=101.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCC----CCcceeeEEEEEE--ECCeEE----------EEEEEeCCCccccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGS----PGEGLNMMDKTLL--VRGARI----------SYSIWEVTGDAKAQ  146 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~----~t~~~~~~~~~~~--~~~~~~----------~l~i~Dt~G~~~~~  146 (268)
                      ...|+++|..++|||||+++|.+..+.....    .++|.++......  ..+...          .+.+|||||++.|.
T Consensus         6 ~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f~   85 (586)
T PRK04004          6 QPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAFT   85 (586)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHHH
Confidence            4579999999999999999998765433322    2444433322110  011111          26899999999999


Q ss_pred             cchhhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccch-----------hchH
Q 041042          147 DHLPVACKDSIAILFMFDLTS---RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQ-----------WTIA  212 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~---~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~-----------~~~~  212 (268)
                      .++...++.+|++++|+|+++   .++++.+..+    ..  .+.|.++++||+|+.........           ....
T Consensus        86 ~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~----~~--~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~~v~  159 (586)
T PRK04004         86 NLRKRGGALADIAILVVDINEGFQPQTIEAINIL----KR--RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQRVQ  159 (586)
T ss_pred             HHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHH----HH--cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhHHHH
Confidence            998888999999999999997   6666665432    22  24566799999997311110000           0000


Q ss_pred             H-------HHHHHHHHh---------------CCeEEEEcCCCCcCHHHHHHHHHH
Q 041042          213 S-------QARAYAKAL---------------NATLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       213 ~-------~~~~~~~~~---------------~~~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                      +       ++.......               .++++++||++|.|++++++.+..
T Consensus       160 ~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~  215 (586)
T PRK04004        160 QELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAG  215 (586)
T ss_pred             HHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHH
Confidence            0       111111111               257899999999999999988764

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.73  E-value=8e-17  Score=145.93  Aligned_cols=164  Identities=15%  Similarity=0.137  Sum_probs=104.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCC---CCC--CCcceeeEE----------------EEEEECC------eEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQ---GGS--PGEGLNMMD----------------KTLLVRG------ARISY  134 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~---~~~--~t~~~~~~~----------------~~~~~~~------~~~~l  134 (268)
                      ..++|+++|..++|||||+++|.+.....   ...  -|+...+..                .....++      ....+
T Consensus         3 ~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   82 (406)
T TIGR03680         3 PEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRV   82 (406)
T ss_pred             ceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEE
Confidence            46899999999999999999997532111   000  011111110                0000011      13578


Q ss_pred             EEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHH
Q 041042          135 SIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQ  214 (268)
Q Consensus       135 ~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~  214 (268)
                      .+|||+|+++|..........+|++++|+|+++........+.+..+.... ..++|+|+||+|+   ...+......++
T Consensus        83 ~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~g-i~~iIVvvNK~Dl---~~~~~~~~~~~~  158 (406)
T TIGR03680        83 SFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIG-IKNIVIVQNKIDL---VSKEKALENYEE  158 (406)
T ss_pred             EEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcC-CCeEEEEEEcccc---CCHHHHHHHHHH
Confidence            999999999998777777788999999999986431111122222222221 2335789999997   222222223455


Q ss_pred             HHHHHHHh---CCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          215 ARAYAKAL---NATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       215 ~~~~~~~~---~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      +.++.+..   +++++++||++|+|++++++.|...+.
T Consensus       159 i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       159 IKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             HHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence            55555543   678999999999999999999988664

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.73  E-value=6e-17  Score=133.99  Aligned_cols=152  Identities=14%  Similarity=0.102  Sum_probs=93.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCC--------------------------CCC---CcceeeEEEEEEECCeEEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQG--------------------------GSP---GEGLNMMDKTLLVRGARISYS  135 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~--------------------------~~~---t~~~~~~~~~~~~~~~~~~l~  135 (268)
                      +|+++|.+|+|||||+++|+...-...                          ..+   .-|.+.......+......+.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~   80 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFI   80 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEE
Confidence            589999999999999999975321100                          000   011122222222222344678


Q ss_pred             EEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHH
Q 041042          136 IWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQ  214 (268)
Q Consensus       136 i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~  214 (268)
                      +|||+|+++|.......++.+|++|+|+|+++...-+. ......+...  ..++ |+|+||+|+... ..+.......+
T Consensus        81 liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~-~~~~~~~~~~--~~~~iIvviNK~D~~~~-~~~~~~~i~~~  156 (208)
T cd04166          81 IADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT-RRHSYILSLL--GIRHVVVAVNKMDLVDY-SEEVFEEIVAD  156 (208)
T ss_pred             EEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH-HHHHHHHHHc--CCCcEEEEEEchhcccC-CHHHHHHHHHH
Confidence            99999999886656667899999999999987532111 1222222222  2344 678999997311 01111223556


Q ss_pred             HHHHHHHhCC---eEEEEcCCCCcCHHHH
Q 041042          215 ARAYAKALNA---TLFFSSATYNINVNKI  240 (268)
Q Consensus       215 ~~~~~~~~~~---~~~~~Sa~~~~~i~~~  240 (268)
                      ++.+.+.++.   +++.+||++|.|+.+.
T Consensus       157 ~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         157 YLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            6777777774   4899999999999854

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.71  E-value=4.3e-16  Score=138.20  Aligned_cols=162  Identities=17%  Similarity=0.192  Sum_probs=109.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCC-CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc-----------h
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDE-KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH-----------L  149 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-----------~  149 (268)
                      ..+||+++|.||||||||+|++++++ ......+.+..|.-...+..+++.  +.+.||+|..+-..+           .
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~--~~liDTAGiRrk~ki~e~~E~~Sv~rt  254 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRK--YVLIDTAGIRRKGKITESVEKYSVART  254 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCeE--EEEEECCCCCcccccccceEEEeehhh
Confidence            46999999999999999999999986 233444444455555666777777  568999995442211           1


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCc--cchhchHHHHHHHHHHh-CCeE
Q 041042          150 PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPI--DLQWTIASQARAYAKAL-NATL  226 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~~~-~~~~  226 (268)
                      ...+..+|++++|.|++..-+-++.+ ....+.+  ...+.|||.||+|+   +..  .......+++....... .++.
T Consensus       255 ~~aI~~a~vvllviDa~~~~~~qD~~-ia~~i~~--~g~~~vIvvNKWDl---~~~~~~~~~~~k~~i~~~l~~l~~a~i  328 (444)
T COG1160         255 LKAIERADVVLLVIDATEGISEQDLR-IAGLIEE--AGRGIVIVVNKWDL---VEEDEATMEEFKKKLRRKLPFLDFAPI  328 (444)
T ss_pred             HhHHhhcCEEEEEEECCCCchHHHHH-HHHHHHH--cCCCeEEEEEcccc---CCchhhHHHHHHHHHHHHhccccCCeE
Confidence            23467899999999999877655533 1222222  25667899999997   332  11122233343333333 4688


Q ss_pred             EEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          227 FFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      +.+||++|.+++++|+.+.+.....
T Consensus       329 ~~iSA~~~~~i~~l~~~i~~~~~~~  353 (444)
T COG1160         329 VFISALTGQGLDKLFEAIKEIYECA  353 (444)
T ss_pred             EEEEecCCCChHHHHHHHHHHHHHh
Confidence            9999999999999999987654433

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.71  E-value=1.8e-16  Score=143.62  Aligned_cols=163  Identities=15%  Similarity=0.163  Sum_probs=101.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCC---CC--CCCCcceeeEEEEE----------------EEC--C----eEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKE---QG--GSPGEGLNMMDKTL----------------LVR--G----ARI  132 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~---~~--~~~t~~~~~~~~~~----------------~~~--~----~~~  132 (268)
                      ....++|+++|..++|||||+.+|.+....   ..  ..-|+...+....+                .++  +    ...
T Consensus         6 ~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (411)
T PRK04000          6 VQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLR   85 (411)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccccc
Confidence            344699999999999999999999653111   00  01122221111000                001  1    135


Q ss_pred             EEEEEeCCCccccccchhhhhcCCcEEEEEEeCCCh----hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccch
Q 041042          133 SYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSR----CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQ  208 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~----~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~  208 (268)
                      .+++|||||+++|..........+|++++|+|+++.    ++.+.+..    +... ...++++|+||+|+   ...+..
T Consensus        86 ~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~----l~~~-~i~~iiVVlNK~Dl---~~~~~~  157 (411)
T PRK04000         86 RVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMA----LDII-GIKNIVIVQNKIDL---VSKERA  157 (411)
T ss_pred             EEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHH----HHHc-CCCcEEEEEEeecc---ccchhH
Confidence            789999999988765444445567999999999853    33333322    2221 12245799999997   222222


Q ss_pred             hchHHHHHHHHHHh---CCeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          209 WTIASQARAYAKAL---NATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       209 ~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      ....+++..+++..   +++++++||++|.|++++++.|...+..
T Consensus       158 ~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~~  202 (411)
T PRK04000        158 LENYEQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIPT  202 (411)
T ss_pred             HHHHHHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCCC
Confidence            22244555555543   5789999999999999999999887643

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

Probab=99.71  E-value=2.2e-16  Score=132.78  Aligned_cols=184  Identities=12%  Similarity=0.201  Sum_probs=117.9

Q ss_pred             CCCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc------cc-----
Q 041042           78 ADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK------AQ-----  146 (268)
Q Consensus        78 ~~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~------~~-----  146 (268)
                      .++.+.+.|+|||.||||||||.|.+++.+.......+. .+.....-.+......+.|+||+|.-.      +.     
T Consensus        67 ~e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~-TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~  145 (379)
T KOG1423|consen   67 EEAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVH-TTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSV  145 (379)
T ss_pred             hhcceEEEEEEEcCCCcchhhhhhHhhCCcccccccccc-ceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHh
Confidence            457888999999999999999999999988644433321 122222223444566789999999321      11     


Q ss_pred             -cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCC----------CCccchhc-hHHH
Q 041042          147 -DHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQ----------LPIDLQWT-IASQ  214 (268)
Q Consensus       147 -~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~----------~~~~~~~~-~~~~  214 (268)
                       .-....+..||++++|+|+++....-. ...+..+.++. ..|-|+|.||.|...+          +.+..... ..+-
T Consensus       146 lq~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~ys-~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v  223 (379)
T KOG1423|consen  146 LQNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEYS-KIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEV  223 (379)
T ss_pred             hhCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHHh-cCCceeeccchhcchhhhHHhhhHHhccccccchhhhhH
Confidence             112334678999999999997332211 13344444443 4455999999996321          00100000 0011


Q ss_pred             HHHHHH---------HhCC----eEEEEcCCCCcCHHHHHHHHHHHHhcCccchhcccCCCCC
Q 041042          215 ARAYAK---------ALNA----TLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGEP  264 (268)
Q Consensus       215 ~~~~~~---------~~~~----~~~~~Sa~~~~~i~~~f~~l~~~i~~~~~~~~~~~~~~~~  264 (268)
                      .+++..         ..|.    .+|.+||++|+||+++-++|...+...+|.......+.++
T Consensus       224 ~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~~gpW~y~a~i~T~~s  286 (379)
T KOG1423|consen  224 QEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAPPGPWKYPADIVTEES  286 (379)
T ss_pred             HHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCCCCCCCCCcccccccC
Confidence            111111         1112    2788999999999999999999999999999988877664

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.70  E-value=1.9e-16  Score=140.53  Aligned_cols=149  Identities=16%  Similarity=0.231  Sum_probs=104.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc---------cchhhhh
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ---------DHLPVAC  153 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~---------~~~~~~~  153 (268)
                      ..|+++|.||||||||+|||++.+. ..+..|.+..|.......+.+..  +.+.||+|-+...         ......+
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~--f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai   81 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGRE--FILIDTGGLDDGDEDELQELIREQALIAI   81 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCce--EEEEECCCCCcCCchHHHHHHHHHHHHHH
Confidence            5799999999999999999999863 23344444555555666777766  8899999976432         2234557


Q ss_pred             cCCcEEEEEEeCCChhhH--HHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEc
Q 041042          154 KDSIAILFMFDLTSRCTL--KSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSS  230 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~--~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~S  230 (268)
                      ..||++|||+|....-+-  +.+.+|+.     ..+.|.|||+||+|-       .  ...+...+| -++|+ ..+.+|
T Consensus        82 ~eADvilfvVD~~~Git~~D~~ia~~Lr-----~~~kpviLvvNK~D~-------~--~~e~~~~ef-yslG~g~~~~IS  146 (444)
T COG1160          82 EEADVILFVVDGREGITPADEEIAKILR-----RSKKPVILVVNKIDN-------L--KAEELAYEF-YSLGFGEPVPIS  146 (444)
T ss_pred             HhCCEEEEEEeCCCCCCHHHHHHHHHHH-----hcCCCEEEEEEcccC-------c--hhhhhHHHH-HhcCCCCceEee
Confidence            899999999998663322  23334433     235677899999993       1  112222222 33444 688899


Q ss_pred             CCCCcCHHHHHHHHHHHHh
Q 041042          231 ATYNINVNKILKFITAKLF  249 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~  249 (268)
                      |..|.|+.++++.+++.+.
T Consensus       147 A~Hg~Gi~dLld~v~~~l~  165 (444)
T COG1160         147 AEHGRGIGDLLDAVLELLP  165 (444)
T ss_pred             hhhccCHHHHHHHHHhhcC
Confidence            9999999999999999884

>cd01850 CDC_Septin CDC/Septin

Probab=99.69  E-value=5e-16  Score=133.60  Aligned_cols=145  Identities=12%  Similarity=0.132  Sum_probs=97.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCC----------CCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc------
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQG----------GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ------  146 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~------  146 (268)
                      .++|+|+|.+|+|||||+|+|++..+...          ..+|++.......+..+|..+.+.+|||+|-..+.      
T Consensus         4 ~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~   83 (276)
T cd01850           4 QFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCW   83 (276)
T ss_pred             EEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhhH
Confidence            58999999999999999999999876443          34566666666677778888999999999943211      


Q ss_pred             --------------------cchhhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCC
Q 041042          147 --------------------DHLPVACK--DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLP  204 (268)
Q Consensus       147 --------------------~~~~~~~~--~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~  204 (268)
                                          ..+...+.  .+|+++++++.+.. .+....  ++.++......+.|+|+||+|+   +.
T Consensus        84 ~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~-~l~~~D--~~~lk~l~~~v~vi~VinK~D~---l~  157 (276)
T cd01850          84 KPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGH-GLKPLD--IEFMKRLSKRVNIIPVIAKADT---LT  157 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCC-CCCHHH--HHHHHHHhccCCEEEEEECCCc---CC
Confidence                                11113333  36677777776542 111111  2222222334566799999997   44


Q ss_pred             ccchhchHHHHHHHHHHhCCeEEEEcCCC
Q 041042          205 IDLQWTIASQARAYAKALNATLFFSSATY  233 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  233 (268)
                      .+......+.+.+.++.+++++|......
T Consensus       158 ~~e~~~~k~~i~~~l~~~~i~~~~~~~~~  186 (276)
T cd01850         158 PEELKEFKQRIMEDIEEHNIKIYKFPEDE  186 (276)
T ss_pred             HHHHHHHHHHHHHHHHHcCCceECCCCCc
Confidence            44444557888899999999999866543

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.

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.69  E-value=5.4e-16  Score=143.38  Aligned_cols=157  Identities=15%  Similarity=0.147  Sum_probs=120.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc------cchhhhhc--
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ------DHLPVACK--  154 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~------~~~~~~~~--  154 (268)
                      ..+|+++|+||||||||.|++++......+.|.+.++.....+...+.+  +++.|.||.-...      ...+.|+.  
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~~--i~ivDLPG~YSL~~~S~DE~Var~~ll~~   80 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGHE--IEIVDLPGTYSLTAYSEDEKVARDFLLEG   80 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCce--EEEEeCCCcCCCCCCCchHHHHHHHHhcC
Confidence            4679999999999999999999998888888866655555555555555  7799999955432      33455553  


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      +.|++|-|.|++|.+.--.+.-.+.++     +.|.|++.|++|.      .+++.+.-+.+++.+..|+|.+++||++|
T Consensus        81 ~~D~ivnVvDAtnLeRnLyltlQLlE~-----g~p~ilaLNm~D~------A~~~Gi~ID~~~L~~~LGvPVv~tvA~~g  149 (653)
T COG0370          81 KPDLIVNVVDATNLERNLYLTLQLLEL-----GIPMILALNMIDE------AKKRGIRIDIEKLSKLLGVPVVPTVAKRG  149 (653)
T ss_pred             CCCEEEEEcccchHHHHHHHHHHHHHc-----CCCeEEEeccHhh------HHhcCCcccHHHHHHHhCCCEEEEEeecC
Confidence            569999999999977433222222222     5567899999996      55666788889999999999999999999


Q ss_pred             cCHHHHHHHHHHHHhcCc
Q 041042          235 INVNKILKFITAKLFDIP  252 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~~~  252 (268)
                      .|++++.+.+.+....+.
T Consensus       150 ~G~~~l~~~i~~~~~~~~  167 (653)
T COG0370         150 EGLEELKRAIIELAESKT  167 (653)
T ss_pred             CCHHHHHHHHHHhccccc
Confidence            999999999987665554

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.69  E-value=6.4e-16  Score=137.50  Aligned_cols=153  Identities=15%  Similarity=0.205  Sum_probs=106.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc--------hhhhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH--------LPVAC  153 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~--------~~~~~  153 (268)
                      .+|++++|.||||||||+|.|.+.+. .....+.+..|.....+.++|..  +.+.||+|...-...        ....+
T Consensus       217 G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G~p--v~l~DTAGiRet~d~VE~iGIeRs~~~i  294 (454)
T COG0486         217 GLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNGIP--VRLVDTAGIRETDDVVERIGIERAKKAI  294 (454)
T ss_pred             CceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECCEE--EEEEecCCcccCccHHHHHHHHHHHHHH
Confidence            58999999999999999999998762 23344544567766777788865  678999997643322        24457


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCC
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATY  233 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  233 (268)
                      +.||.+++|+|.+...+-.+.. .+.   ....+.+.++|.||.||..+..          ...+.-..+.+++.+||++
T Consensus       295 ~~ADlvL~v~D~~~~~~~~d~~-~~~---~~~~~~~~i~v~NK~DL~~~~~----------~~~~~~~~~~~~i~iSa~t  360 (454)
T COG0486         295 EEADLVLFVLDASQPLDKEDLA-LIE---LLPKKKPIIVVLNKADLVSKIE----------LESEKLANGDAIISISAKT  360 (454)
T ss_pred             HhCCEEEEEEeCCCCCchhhHH-HHH---hcccCCCEEEEEechhcccccc----------cchhhccCCCceEEEEecC
Confidence            8999999999999853222211 111   2334566689999999832111          1111112344689999999


Q ss_pred             CcCHHHHHHHHHHHHhcC
Q 041042          234 NINVNKILKFITAKLFDI  251 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~  251 (268)
                      |+|++++.+.|.+.+...
T Consensus       361 ~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         361 GEGLDALREAIKQLFGKG  378 (454)
T ss_pred             ccCHHHHHHHHHHHHhhc
Confidence            999999999998877766

>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=99.67  E-value=9.3e-16  Score=127.78  Aligned_cols=167  Identities=21%  Similarity=0.199  Sum_probs=112.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCC---CCCCcceeeEEEEEEE-CCeEEEEEEEeCCCcccccc-----chhhhhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQG---GSPGEGLNMMDKTLLV-RGARISYSIWEVTGDAKAQD-----HLPVACKD  155 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~---~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~-----~~~~~~~~  155 (268)
                      ||+++|..++||||+.+.+.++-...+   ..+|+.++    .-.+ ....+.+++||+|||..+..     .....+++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve----~~~v~~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~   76 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVE----KSHVRFLSFLPLNIWDCPGQDDFMENYFNSQREEIFSN   76 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEE----EEEEECTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCT
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCce----EEEEecCCCcEEEEEEcCCccccccccccccHHHHHhc
Confidence            899999999999999998876642211   22333322    2222 23456799999999986543     35677899


Q ss_pred             CcEEEEEEeCCChh---hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch----HHHHHHHHHHhC---Ce
Q 041042          156 SIAILFMFDLTSRC---TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI----ASQARAYAKALN---AT  225 (268)
Q Consensus       156 a~~vilv~D~~~~~---s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~----~~~~~~~~~~~~---~~  225 (268)
                      +.++|+|+|+.+.+   .+..+...++.+.+++++..+.|..+|+|+   ++++.+...    .+.+.+.+...+   +.
T Consensus        77 v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~---l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~  153 (232)
T PF04670_consen   77 VGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDL---LSEDEREEIFRDIQQRIRDELEDLGIEDIT  153 (232)
T ss_dssp             ESEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCC---S-HHHHHHHHHHHHHHHHHHHHHTT-TSEE
T ss_pred             cCEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeeccc---CCHHHHHHHHHHHHHHHHHHhhhccccceE
Confidence            99999999998444   344555667777888888777799999998   666555544    344445555566   77


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHHHhcCccchhccc
Q 041042          226 LFFSSATYNINVNKILKFITAKLFDIPWTLERNL  259 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~i~~~~~~~~~~~  259 (268)
                      ++.||.-+ +.+-++|..+++.++.+....++.+
T Consensus       154 ~~~TSI~D-~Sly~A~S~Ivq~LiP~~~~le~~L  186 (232)
T PF04670_consen  154 FFLTSIWD-ESLYEAWSKIVQKLIPNLSTLENLL  186 (232)
T ss_dssp             EEEE-TTS-THHHHHHHHHHHTTSTTHCCCCCCC
T ss_pred             EEeccCcC-cHHHHHHHHHHHHHcccHHHHHHHH
Confidence            88899877 6799999999999988776666544

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.

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

Probab=99.67  E-value=9.2e-16  Score=117.55  Aligned_cols=134  Identities=19%  Similarity=0.239  Sum_probs=92.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc----ccccchhhhhcCCcEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA----KAQDHLPVACKDSIAIL  160 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~----~~~~~~~~~~~~a~~vi  160 (268)
                      ||+++|..|+|||||+++|.+.+.  .+..|..+.|.            =.++||||.-    .|..-.-....+||+++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~------------~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~   68 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYY------------DNTIDTPGEYIENPRFYHALIVTAQDADVVL   68 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEec------------ccEEECChhheeCHHHHHHHHHHHhhCCEEE
Confidence            899999999999999999988764  34444333332            1358999832    12222223345899999


Q ss_pred             EEEeCCChhh-HHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe-EEEEcCCCCcCHH
Q 041042          161 FMFDLTSRCT-LKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT-LFFSSATYNINVN  238 (268)
Q Consensus       161 lv~D~~~~~s-~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~i~  238 (268)
                      +|.|+++..+ |.-  .+...     -..|+|-|.||+|+    .  ......+.++++.+..|+. .|++|+.+|+||+
T Consensus        69 ll~dat~~~~~~pP--~fa~~-----f~~pvIGVITK~Dl----~--~~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~  135 (143)
T PF10662_consen   69 LLQDATEPRSVFPP--GFASM-----FNKPVIGVITKIDL----P--SDDANIERAKKWLKNAGVKEIFEVSAVTGEGIE  135 (143)
T ss_pred             EEecCCCCCccCCc--hhhcc-----cCCCEEEEEECccC----c--cchhhHHHHHHHHHHcCCCCeEEEECCCCcCHH
Confidence            9999998754 211  11111     14567889999997    2  1233456778888888874 6889999999999


Q ss_pred             HHHHHHH
Q 041042          239 KILKFIT  245 (268)
Q Consensus       239 ~~f~~l~  245 (268)
                      ++.++|-
T Consensus       136 eL~~~L~  142 (143)
T PF10662_consen  136 ELKDYLE  142 (143)
T ss_pred             HHHHHHh
Confidence            9999874

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

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.67  E-value=1.7e-15  Score=124.30  Aligned_cols=162  Identities=14%  Similarity=0.143  Sum_probs=97.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCccee-eEEEEEEEC-CeEEEEEEEeCCCccccccchhhh-----hcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLN-MMDKTLLVR-GARISYSIWEVTGDAKAQDHLPVA-----CKD  155 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~-~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~-----~~~  155 (268)
                      .+||+++|.+|||||||+|.+.+..+......+++.. .......+. .....+.+|||+|..........|     +.+
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~   80 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGIGSTAFPPDDYLEEMKFSE   80 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCCCcccCCHHHHHHHhCccC
Confidence            3799999999999999999999866543333333310 000000111 112358899999975433222333     677


Q ss_pred             CcEEEEEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCcc--------chhchHHHHHHH----HHHh
Q 041042          156 SIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPID--------LQWTIASQARAY----AKAL  222 (268)
Q Consensus       156 a~~vilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~--------~~~~~~~~~~~~----~~~~  222 (268)
                      +|++++|.|.    +|.... .|++.+...  ..+.++|+||+|+..  +..        .+....++.++.    ....
T Consensus        81 ~d~~l~v~~~----~~~~~d~~~~~~l~~~--~~~~ilV~nK~D~~~--~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~  152 (197)
T cd04104          81 YDFFIIISST----RFSSNDVKLAKAIQCM--GKKFYFVRTKVDRDL--SNEQRSKPRSFNREQVLQEIRDNCLENLQEA  152 (197)
T ss_pred             cCEEEEEeCC----CCCHHHHHHHHHHHHh--CCCEEEEEecccchh--hhhhccccccccHHHHHHHHHHHHHHHHHHc
Confidence            8988888432    343333 556666554  345689999999721  111        011222233222    2232


Q ss_pred             C---CeEEEEcCC--CCcCHHHHHHHHHHHHhcCc
Q 041042          223 N---ATLFFSSAT--YNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       223 ~---~~~~~~Sa~--~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +   -++|-+|+.  .+.|+..+.+.+...+.+.+
T Consensus       153 ~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~  187 (197)
T cd04104         153 GVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHK  187 (197)
T ss_pred             CCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHH
Confidence            2   357889998  67899999999998887654

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

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.67  E-value=3.9e-15  Score=127.28  Aligned_cols=206  Identities=17%  Similarity=0.148  Sum_probs=134.1

Q ss_pred             hhhhhccCCCCCCCcCCCCCCCCCCCCccccCCCCCCCCCCCCccCCCCCCCCCCceeEEEE----EEcCCCChHHHHHH
Q 041042           26 EKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHLDADNLVALKIS----LLGDCHIGKTSFLE  101 (268)
Q Consensus        26 ~~~~~~s~g~~~~~~~l~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ki~----vlG~~~vGKSsLi~  101 (268)
                      +++++|.+|.+++....+.++. ..+|.....|.+              .+...-..++|++    ++|.||+|||||++
T Consensus       113 q~~~~akGG~GG~GN~~Fks~~-nrAP~~a~~G~~--------------Ge~r~v~LELKllADVGLVG~PNaGKSTlls  177 (369)
T COG0536         113 QRFLVAKGGRGGLGNAHFKSSV-NRAPRFATPGEP--------------GEERDLRLELKLLADVGLVGLPNAGKSTLLS  177 (369)
T ss_pred             cEEEEEcCCCCCccchhhcCcc-cCCcccCCCCCC--------------CceEEEEEEEeeecccccccCCCCcHHHHHH
Confidence            6788899999987666555544 566666655553              2222344466655    99999999999999


Q ss_pred             HHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc----ccchhhh---hcCCcEEEEEEeCCChh---hH
Q 041042          102 KYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA----QDHLPVA---CKDSIAILFMFDLTSRC---TL  171 (268)
Q Consensus       102 ~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~----~~~~~~~---~~~a~~vilv~D~~~~~---s~  171 (268)
                      .+...+..-..+|-+...-.--.+.+ ...-.+.+=|.||.-.-    ..+-..|   ++.+.+++.|+|++..+   -.
T Consensus       178 ~vS~AkPKIadYpFTTL~PnLGvV~~-~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~vL~hviD~s~~~~~dp~  256 (369)
T COG0536         178 AVSAAKPKIADYPFTTLVPNLGVVRV-DGGESFVVADIPGLIEGASEGVGLGLRFLRHIERTRVLLHVIDLSPIDGRDPI  256 (369)
T ss_pred             HHhhcCCcccCCccccccCcccEEEe-cCCCcEEEecCcccccccccCCCccHHHHHHHHhhheeEEEEecCcccCCCHH
Confidence            99887643333331111111123333 22334778999984332    2333444   45788999999998665   36


Q ss_pred             HHHHHHHHHHHHhCC---CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEE-EcCCCCcCHHHHHHHHHHH
Q 041042          172 KSVIRWYQQARKCNQ---TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAK  247 (268)
Q Consensus       172 ~~~~~~~~~i~~~~~---~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~Sa~~~~~i~~~f~~l~~~  247 (268)
                      ++......++.+|.+   +.+.+||+||+|+.     ...+........+.+..+...+. +||.+++|++++...+.+.
T Consensus       257 ~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~-----~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~~g~~~L~~~~~~~  331 (369)
T COG0536         257 EDYQTIRNELEKYSPKLAEKPRIVVLNKIDLP-----LDEEELEELKKALAEALGWEVFYLISALTREGLDELLRALAEL  331 (369)
T ss_pred             HHHHHHHHHHHHhhHHhccCceEEEEeccCCC-----cCHHHHHHHHHHHHHhcCCCcceeeehhcccCHHHHHHHHHHH
Confidence            777777788888754   56679999999952     11222234444455555544332 9999999999999999888


Q ss_pred             HhcCc
Q 041042          248 LFDIP  252 (268)
Q Consensus       248 i~~~~  252 (268)
                      +.+..
T Consensus       332 l~~~~  336 (369)
T COG0536         332 LEETK  336 (369)
T ss_pred             HHHhh
Confidence            77775

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

Probab=99.66  E-value=5e-15  Score=125.23  Aligned_cols=198  Identities=15%  Similarity=0.134  Sum_probs=129.9

Q ss_pred             hhhhhccCCCCCCCcCCCCCCCCCCCCccccCCCCCCCCCCCCccCCCCCCCCCCceeEE----EEEEcCCCChHHHHHH
Q 041042           26 EKLLMCSVGKPIRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHLDADNLVALK----ISLLGDCHIGKTSFLE  101 (268)
Q Consensus        26 ~~~~~~s~g~~~~~~~l~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k----i~vlG~~~vGKSsLi~  101 (268)
                      ++.++|.+|.++++.+.+.+.. ..+|.....|..              .++.-...++|    |-+||.||+|||||++
T Consensus       150 ~~~i~arGG~GG~gn~~fls~~-~r~p~~~~~G~~--------------G~e~~~~lELKsiadvGLVG~PNAGKSTLL~  214 (366)
T KOG1489|consen  150 DRVIAARGGEGGKGNKFFLSNE-NRSPKFSKPGLN--------------GEERVIELELKSIADVGLVGFPNAGKSTLLN  214 (366)
T ss_pred             cEEEEeecCCCCccceeecccc-ccCcccccCCCC--------------CceEEEEEEeeeecccceecCCCCcHHHHHH
Confidence            5678899988888777766633 222332222221              22222334455    4499999999999999


Q ss_pred             HHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc----ccchhhh---hcCCcEEEEEEeCCCh---hhH
Q 041042          102 KYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA----QDHLPVA---CKDSIAILFMFDLTSR---CTL  171 (268)
Q Consensus       102 ~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~----~~~~~~~---~~~a~~vilv~D~~~~---~s~  171 (268)
                      .+...+.....++-+...-..-++.+++-. .+.+-|.||.-+-    +.+-..|   ++.|+..++|.|++..   ..+
T Consensus       215 als~AKpkVa~YaFTTL~P~iG~v~yddf~-q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~l~fVvD~s~~~~~~p~  293 (366)
T KOG1489|consen  215 ALSRAKPKVAHYAFTTLRPHIGTVNYDDFS-QITVADIPGIIEGAHMNKGLGYKFLRHIERCKGLLFVVDLSGKQLRNPW  293 (366)
T ss_pred             HhhccCCcccccceeeeccccceeeccccc-eeEeccCccccccccccCcccHHHHHHHHhhceEEEEEECCCcccCCHH
Confidence            998876443333311111111233333322 2888999995432    3344444   4578999999999988   788


Q ss_pred             HHHHHHHHHHHHhC---CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe-EEEEcCCCCcCHHHHHHHHHHH
Q 041042          172 KSVIRWYQQARKCN---QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT-LFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       172 ~~~~~~~~~i~~~~---~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      +.++....++..+.   .+.|.+||+||+|+    ++.    ...-+.++++...-+ ++.+||++++|+.++.+.|.+.
T Consensus       294 ~~~~lL~~ELe~yek~L~~rp~liVaNKiD~----~ea----e~~~l~~L~~~lq~~~V~pvsA~~~egl~~ll~~lr~~  365 (366)
T KOG1489|consen  294 QQLQLLIEELELYEKGLADRPALIVANKIDL----PEA----EKNLLSSLAKRLQNPHVVPVSAKSGEGLEELLNGLREL  365 (366)
T ss_pred             HHHHHHHHHHHHHhhhhccCceEEEEeccCc----hhH----HHHHHHHHHHHcCCCcEEEeeeccccchHHHHHHHhhc
Confidence            88887777777764   35667899999995    221    122357777777644 8999999999999999887653

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.66  E-value=2.5e-15  Score=126.53  Aligned_cols=113  Identities=12%  Similarity=0.142  Sum_probs=80.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCC--------C-----CCC---CCcceeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKE--------Q-----GGS---PGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~--------~-----~~~---~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      .|+++|..|+|||||+++++...-.        .     ++.   .+.|.++......+.....++++|||+|+.+|...
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~   80 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAE   80 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHH
Confidence            4789999999999999999753110        0     000   11223333334444445677999999999999888


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      ...+++.+|++++|+|+++.... ....|+..+.+.  +.|.++++||+|+.
T Consensus        81 ~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~~--~~P~iivvNK~D~~  129 (237)
T cd04168          81 VERSLSVLDGAILVISAVEGVQA-QTRILWRLLRKL--NIPTIIFVNKIDRA  129 (237)
T ss_pred             HHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHHc--CCCEEEEEECcccc
Confidence            88999999999999999886543 334555555543  44558999999975

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.

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.66  E-value=5.6e-15  Score=120.82  Aligned_cols=150  Identities=11%  Similarity=0.104  Sum_probs=97.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCC-------CC----CCC---CCcceeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEK-------EQ----GGS---PGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~-------~~----~~~---~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      .++|+++|..++|||||+++|+....       ..    +..   ..-|.+.......+......+.+.||||+..|...
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~   81 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKN   81 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHH
Confidence            47899999999999999999975310       00    000   01233333333444445567889999999888776


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCCCCccc-hhchHHHHHHHHHHhC---
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQLPIDL-QWTIASQARAYAKALN---  223 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~---  223 (268)
                      ....+..+|++++|+|++..-.-+ ....+..+...  +.+ .|++.||+|+   ..++. .....+++..+....+   
T Consensus        82 ~~~~~~~~D~~ilVvda~~g~~~~-~~~~~~~~~~~--~~~~iIvviNK~D~---~~~~~~~~~~~~~i~~~l~~~g~~~  155 (195)
T cd01884          82 MITGAAQMDGAILVVSATDGPMPQ-TREHLLLARQV--GVPYIVVFLNKADM---VDDEELLELVEMEVRELLSKYGFDG  155 (195)
T ss_pred             HHHHhhhCCEEEEEEECCCCCcHH-HHHHHHHHHHc--CCCcEEEEEeCCCC---CCcHHHHHHHHHHHHHHHHHhcccc
Confidence            777788999999999997643222 22233334332  334 3688999997   32222 1223556777766654   


Q ss_pred             --CeEEEEcCCCCcCHH
Q 041042          224 --ATLFFSSATYNINVN  238 (268)
Q Consensus       224 --~~~~~~Sa~~~~~i~  238 (268)
                        ++++.+||++|.|+.
T Consensus       156 ~~v~iipiSa~~g~n~~  172 (195)
T cd01884         156 DNTPIVRGSALKALEGD  172 (195)
T ss_pred             cCCeEEEeeCccccCCC
Confidence              679999999999863

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.

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.65  E-value=5.9e-15  Score=118.20  Aligned_cols=161  Identities=13%  Similarity=0.120  Sum_probs=109.1

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC----------ccccccc
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG----------DAKAQDH  148 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G----------~~~~~~~  148 (268)
                      +......|+++|.+|||||||||.+++.+-......|.|.+.....+.++++   +.+.|.||          ++.+..+
T Consensus        20 P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~   96 (200)
T COG0218          20 PEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKL   96 (200)
T ss_pred             CCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHH
Confidence            3444578999999999999999999997744555666677776666677665   67899999          4455666


Q ss_pred             hhhhhcC---CcEEEEEEeCCChhhHH--HHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHH-HHHHHh
Q 041042          149 LPVACKD---SIAILFMFDLTSRCTLK--SVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQAR-AYAKAL  222 (268)
Q Consensus       149 ~~~~~~~---a~~vilv~D~~~~~s~~--~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~-~~~~~~  222 (268)
                      ...|++.   -.++++++|+...-.-.  ++-+|+.+.     +.+++||+||+|.   +............. .+....
T Consensus        97 i~~YL~~R~~L~~vvlliD~r~~~~~~D~em~~~l~~~-----~i~~~vv~tK~DK---i~~~~~~k~l~~v~~~l~~~~  168 (200)
T COG0218          97 IEEYLEKRANLKGVVLLIDARHPPKDLDREMIEFLLEL-----GIPVIVVLTKADK---LKKSERNKQLNKVAEELKKPP  168 (200)
T ss_pred             HHHHHhhchhheEEEEEEECCCCCcHHHHHHHHHHHHc-----CCCeEEEEEcccc---CChhHHHHHHHHHHHHhcCCC
Confidence            6777754   45888899986543332  333555543     5566899999997   43322221112222 222222


Q ss_pred             CCe--EEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          223 NAT--LFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       223 ~~~--~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      ...  ++..|+.++.|++++...|.+.+..
T Consensus       169 ~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         169 PDDQWVVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             CccceEEEEecccccCHHHHHHHHHHHhhc
Confidence            232  6779999999999999998877654

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.65  E-value=2.4e-15  Score=125.56  Aligned_cols=156  Identities=11%  Similarity=0.134  Sum_probs=96.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCC-----------------------CcceeeEEEEE-------------EEC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSP-----------------------GEGLNMMDKTL-------------LVR  128 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~-----------------------t~~~~~~~~~~-------------~~~  128 (268)
                      ||+++|+.++|||||+++|..+.|......                       .+|.+...+.+             .+.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            689999999999999999997666432110                       01111100000             001


Q ss_pred             CeEEEEEEEeCCCccccccchhhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCcc
Q 041042          129 GARISYSIWEVTGDAKAQDHLPVACK--DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPID  206 (268)
Q Consensus       129 ~~~~~l~i~Dt~G~~~~~~~~~~~~~--~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~  206 (268)
                      .....+.+.||||+++|.......+.  .+|++++|+|+.....- .-..++..+...  +.|+++|.||+|+   .+..
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~-~d~~~l~~l~~~--~ip~ivvvNK~D~---~~~~  154 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIG-MTKEHLGLALAL--NIPVFVVVTKIDL---APAN  154 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcH-HHHHHHHHHHHc--CCCEEEEEECccc---cCHH
Confidence            12346889999999988654443443  68999999998765432 222334434332  3456899999997   3332


Q ss_pred             chhchHHHHHHHHHH--------------------------hCCeEEEEcCCCCcCHHHHHHHHHH
Q 041042          207 LQWTIASQARAYAKA--------------------------LNATLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       207 ~~~~~~~~~~~~~~~--------------------------~~~~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                      ......+++.++.+.                          ..+++|.+||.+|+|++++...|..
T Consensus       155 ~~~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         155 ILQETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             HHHHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence            222334444444331                          1247899999999999999887643

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

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

Probab=99.64  E-value=2.6e-15  Score=125.21  Aligned_cols=152  Identities=11%  Similarity=0.074  Sum_probs=91.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC--CC------------------------CCCCC---CcceeeEEEEEEECCeEEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE--KE------------------------QGGSP---GEGLNMMDKTLLVRGARISYS  135 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~--~~------------------------~~~~~---t~~~~~~~~~~~~~~~~~~l~  135 (268)
                      .|+++|..++|||||+.+|+...  ..                        .++.+   .-|.+.......+......+.
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~   80 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFT   80 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEE
Confidence            37999999999999999986321  00                        00000   012222222223333456789


Q ss_pred             EEeCCCccccccchhhhhcCCcEEEEEEeCCChh-------hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCC-CCccc
Q 041042          136 IWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC-------TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQ-LPIDL  207 (268)
Q Consensus       136 i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~-------s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~-~~~~~  207 (268)
                      +|||+|+..|.......+..+|++|+|+|+++..       ..+....| ...... ...++|+|+||+|+... .....
T Consensus        81 liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~iiivvNK~Dl~~~~~~~~~  158 (219)
T cd01883          81 ILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHA-LLARTL-GVKQLIVAVNKMDDVTVNWSEER  158 (219)
T ss_pred             EEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHH-HHHHHc-CCCeEEEEEEccccccccccHHH
Confidence            9999999887666666678899999999998842       11112222 222222 22344689999997311 01111


Q ss_pred             hhchHHHHHHHHHHhC-----CeEEEEcCCCCcCHH
Q 041042          208 QWTIASQARAYAKALN-----ATLFFSSATYNINVN  238 (268)
Q Consensus       208 ~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~  238 (268)
                      .....+++..+.+..+     ++++.+||++|.|++
T Consensus       159 ~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         159 YDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             HHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            1223445555555554     569999999999987

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

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.63  E-value=1.5e-15  Score=116.78  Aligned_cols=160  Identities=16%  Similarity=0.168  Sum_probs=117.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .-|++++|-.|+|||||++.+.+++. ..+.||...+-  .++.+.+  ++++.+|.+|+..-+..|..|+..+|++++.
T Consensus        20 ~gKllFlGLDNAGKTTLLHMLKdDrl-~qhvPTlHPTS--E~l~Ig~--m~ftt~DLGGH~qArr~wkdyf~~v~~iv~l   94 (193)
T KOG0077|consen   20 FGKLLFLGLDNAGKTTLLHMLKDDRL-GQHVPTLHPTS--EELSIGG--MTFTTFDLGGHLQARRVWKDYFPQVDAIVYL   94 (193)
T ss_pred             CceEEEEeecCCchhhHHHHHccccc-cccCCCcCCCh--HHheecC--ceEEEEccccHHHHHHHHHHHHhhhceeEee
Confidence            35999999999999999999988875 56777665432  3444554  5688999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-----------CeEEEE
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-----------ATLFFS  229 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~  229 (268)
                      +|+.|.+.|.+.+.-++.+....  ...|+++.|||+|.+....+++-+. .-.+.+++-..+           +..|.|
T Consensus        95 vda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~se~~l~~-~l~l~~~t~~~~~v~~~~~~~rp~evfmc  173 (193)
T KOG0077|consen   95 VDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAASEDELRF-HLGLSNFTTGKGKVNLTDSNVRPLEVFMC  173 (193)
T ss_pred             eehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcccHHHHHH-HHHHHHHhcccccccccCCCCCeEEEEEE
Confidence            99999999999987777765543  4566789999999754432211111 112222222211           246779


Q ss_pred             cCCCCcCHHHHHHHHHHHH
Q 041042          230 SATYNINVNKILKFITAKL  248 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i  248 (268)
                      |...+.+.-+.|.|+...+
T Consensus       174 si~~~~gy~e~fkwl~qyi  192 (193)
T KOG0077|consen  174 SIVRKMGYGEGFKWLSQYI  192 (193)
T ss_pred             EEEccCccceeeeehhhhc
Confidence            9998888888888876543

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.63  E-value=1e-14  Score=121.41  Aligned_cols=113  Identities=16%  Similarity=0.257  Sum_probs=77.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC--CCCCCC------------CCcceeeEE--EEEEEC--------CeEEEEEEEeCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE--KEQGGS------------PGEGLNMMD--KTLLVR--------GARISYSIWEVT  140 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~--~~~~~~------------~t~~~~~~~--~~~~~~--------~~~~~l~i~Dt~  140 (268)
                      .|+++|..++|||||+.+|+...  ......            ..-|.+...  ..+.+.        +..+.+++|||+
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            58999999999999999997532  110000            000111111  122222        447889999999


Q ss_pred             CccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       141 G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      |++.|......+++.+|++++|+|+++..+.+....|. ....  .+.++|||+||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~-~~~~--~~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVLR-QALK--ERVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHH-HHHH--cCCCEEEEEECCCcc
Confidence            99999999999999999999999999876665433332 2222  235668999999973

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

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.61  E-value=1.2e-14  Score=131.44  Aligned_cols=150  Identities=12%  Similarity=0.103  Sum_probs=96.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC-------CC-----CC--CCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE-------KE-----QG--GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~-------~~-----~~--~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      ....++|+++|..++|||||+++|++..       +.     ..  ....-|.+.....+.++.....+.+|||||+++|
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~f   88 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHADY   88 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchHHH
Confidence            3446999999999999999999997420       10     00  0001233333344455555667889999999988


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceE-EEEeCCCCCCCCCccc-hhchHHHHHHHHHHhC
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFIQLPIDL-QWTIASQARAYAKALN  223 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~i-lvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~  223 (268)
                      ..........+|++++|+|+++...-+. .+.+..+...  +.+++ ++.||+|+   .+.+. .....++++.+++..+
T Consensus        89 ~~~~~~~~~~~D~~ilVvda~~g~~~qt-~e~l~~~~~~--gi~~iIvvvNK~Dl---~~~~~~~~~~~~~i~~~l~~~~  162 (394)
T TIGR00485        89 VKNMITGAAQMDGAILVVSATDGPMPQT-REHILLARQV--GVPYIVVFLNKCDM---VDDEELLELVEMEVRELLSEYD  162 (394)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHHc--CCCEEEEEEEeccc---CCHHHHHHHHHHHHHHHHHhcC
Confidence            6555555677899999999987322221 1222233322  34555 68999997   32221 1223457778887775


Q ss_pred             -----CeEEEEcCCCCc
Q 041042          224 -----ATLFFSSATYNI  235 (268)
Q Consensus       224 -----~~~~~~Sa~~~~  235 (268)
                           ++++.+||++|.
T Consensus       163 ~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       163 FPGDDTPIIRGSALKAL  179 (394)
T ss_pred             CCccCccEEECcccccc
Confidence                 789999999875

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.

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.61  E-value=6.2e-16  Score=116.67  Aligned_cols=113  Identities=14%  Similarity=0.070  Sum_probs=84.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCC-CCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGS-PGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      +||+++|+.|||||+|+.++....|...+. +|++                           +..+...+++.++++++|
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v   53 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQC   53 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEE
Confidence            599999999999999999998888765544 5544                           334456678899999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+.++.++++.+  |...+...++..++ ++++||.|+.    ++        . .++++.+..++++|+++|.|+.
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~----~~--------~-~~~~~~~~~~~~~s~~~~~~~~  115 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLE----EE--------R-QVATEEGLEFAETSAKTPEEGE  115 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhH----hh--------C-cCCHHHHHHHHHHhCCCcchhh
Confidence            999999999876  88877766554455 6999999961    11        1 2223333456788999999984

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.61  E-value=2.1e-14  Score=129.78  Aligned_cols=164  Identities=11%  Similarity=0.110  Sum_probs=104.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcC-------CCC----CC---CCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGD-------EKE----QG---GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~-------~~~----~~---~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      ....++|+++|..++|||||+++|++.       .+.    .+   ....-|.+.......+......+.++||||+++|
T Consensus         9 ~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f   88 (396)
T PRK12735          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADY   88 (396)
T ss_pred             CCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHH
Confidence            344699999999999999999999862       110    00   0001233333333444444556889999999888


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceE-EEEeCCCCCCCCCccc-hhchHHHHHHHHHHhC
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFIQLPIDL-QWTIASQARAYAKALN  223 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~i-lvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~  223 (268)
                      .......+..+|++++|+|+.+...-+ ..+.+..+...  +.+.| ++.||+|+.   ..+. .....+++..+.+.++
T Consensus        89 ~~~~~~~~~~aD~~llVvda~~g~~~q-t~e~l~~~~~~--gi~~iivvvNK~Dl~---~~~~~~~~~~~ei~~~l~~~~  162 (396)
T PRK12735         89 VKNMITGAAQMDGAILVVSAADGPMPQ-TREHILLARQV--GVPYIVVFLNKCDMV---DDEELLELVEMEVRELLSKYD  162 (396)
T ss_pred             HHHHHhhhccCCEEEEEEECCCCCchh-HHHHHHHHHHc--CCCeEEEEEEecCCc---chHHHHHHHHHHHHHHHHHcC
Confidence            665556677899999999998643222 22333333322  34545 679999972   2211 2223456777777654


Q ss_pred             -----CeEEEEcCCCCc----------CHHHHHHHHHHHHh
Q 041042          224 -----ATLFFSSATYNI----------NVNKILKFITAKLF  249 (268)
Q Consensus       224 -----~~~~~~Sa~~~~----------~i~~~f~~l~~~i~  249 (268)
                           ++++++||++|.          ++.++++.|...+.
T Consensus       163 ~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~~  203 (396)
T PRK12735        163 FPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYIP  203 (396)
T ss_pred             CCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcCC
Confidence                 678999999984          56777777766543

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.61  E-value=2.8e-14  Score=124.69  Aligned_cols=81  Identities=19%  Similarity=0.278  Sum_probs=58.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcCCCCC------CCCCCcceeeEEEE---------------EEECC-eEEEEEEEeCCCc-
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDEKEQ------GGSPGEGLNMMDKT---------------LLVRG-ARISYSIWEVTGD-  142 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~~~~------~~~~t~~~~~~~~~---------------~~~~~-~~~~l~i~Dt~G~-  142 (268)
                      |+++|.+|||||||++++++..+..      ...|++|..+....               ..+++ ..+.+++|||||. 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            5799999999999999999987432      23444454433211               11233 3477999999997 


Q ss_pred             ---cccccchhhh---hcCCcEEEEEEeCC
Q 041042          143 ---AKAQDHLPVA---CKDSIAILFMFDLT  166 (268)
Q Consensus       143 ---~~~~~~~~~~---~~~a~~vilv~D~~  166 (268)
                         +++..+...|   +++||++++|+|++
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence               5566666665   89999999999997

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=99.60  E-value=2.6e-14  Score=129.12  Aligned_cols=163  Identities=11%  Similarity=0.107  Sum_probs=105.1

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCC-----------C---CCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQ-----------G---GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ  146 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~-----------~---~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~  146 (268)
                      ...++|+++|..++|||||+++|++.....           +   ....-|.+.......+......+.++||||+++|.
T Consensus        10 k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f~   89 (394)
T PRK12736         10 KPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADYV   89 (394)
T ss_pred             CCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHHH
Confidence            346899999999999999999997631100           0   00012333333344454455668899999999886


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccc-hhchHHHHHHHHHHhC-
Q 041042          147 DHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDL-QWTIASQARAYAKALN-  223 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~-  223 (268)
                      ......+..+|++++|+|+++...-+. .+.+..+...  +.+. ||+.||+|+   ...+. .....+++..+.+..+ 
T Consensus        90 ~~~~~~~~~~d~~llVvd~~~g~~~~t-~~~~~~~~~~--g~~~~IvviNK~D~---~~~~~~~~~i~~~i~~~l~~~~~  163 (394)
T PRK12736         90 KNMITGAAQMDGAILVVAATDGPMPQT-REHILLARQV--GVPYLVVFLNKVDL---VDDEELLELVEMEVRELLSEYDF  163 (394)
T ss_pred             HHHHHHHhhCCEEEEEEECCCCCchhH-HHHHHHHHHc--CCCEEEEEEEecCC---cchHHHHHHHHHHHHHHHHHhCC
Confidence            655555678999999999976322111 2223333332  3453 588999997   22211 1223456777777665 


Q ss_pred             ----CeEEEEcCCCCc--------CHHHHHHHHHHHHh
Q 041042          224 ----ATLFFSSATYNI--------NVNKILKFITAKLF  249 (268)
Q Consensus       224 ----~~~~~~Sa~~~~--------~i~~~f~~l~~~i~  249 (268)
                          ++++.+||++|.        ++.++++.+.+.+.
T Consensus       164 ~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        164 PGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             CcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence                579999999983        57788888776654

>cd04169 RF3 RF3 subfamily

Probab=99.58  E-value=5.5e-14  Score=120.36  Aligned_cols=113  Identities=11%  Similarity=0.127  Sum_probs=77.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-CC---------CCCC----------cceeeEEEEEEECCeEEEEEEEeCCCcc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-QG---------GSPG----------EGLNMMDKTLLVRGARISYSIWEVTGDA  143 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-~~---------~~~t----------~~~~~~~~~~~~~~~~~~l~i~Dt~G~~  143 (268)
                      -.|+++|.+|+|||||+++++...-. ..         ...|          .|.++......+....+++++|||+|+.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~   82 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHE   82 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCch
Confidence            36999999999999999999742100 00         0000          1223333444555666789999999999


Q ss_pred             ccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       144 ~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      +|......+++.+|++|+|+|+++...- ....++.....  .+.|.++++||+|+
T Consensus        83 df~~~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~~--~~~P~iivvNK~D~  135 (267)
T cd04169          83 DFSEDTYRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCRL--RGIPIITFINKLDR  135 (267)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCccH-HHHHHHHHHHh--cCCCEEEEEECCcc
Confidence            9888777889999999999999875332 22344444333  24456799999996

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.

>PRK13351 elongation factor G; Reviewed

Probab=99.57  E-value=3.8e-14  Score=136.59  Aligned_cols=116  Identities=15%  Similarity=0.183  Sum_probs=80.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC-------------CCCCCC---CcceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK-------------EQGGSP---GEGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~-------------~~~~~~---t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      ...+|+|+|..++|||||+++|+...-             ..++.+   ..+.+.......+......+++|||+|+.+|
T Consensus         7 ~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~df   86 (687)
T PRK13351          7 QIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHIDF   86 (687)
T ss_pred             cccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHHH
Confidence            457999999999999999999975310             000000   0111121112223334567999999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      ......+++.+|++|+|+|+++..+.+....| ..+...  +.|.++|+||+|+.
T Consensus        87 ~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~~--~~p~iiviNK~D~~  138 (687)
T PRK13351         87 TGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADRY--GIPRLIFINKMDRV  138 (687)
T ss_pred             HHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHhc--CCCEEEEEECCCCC
Confidence            88899999999999999999988777665555 333332  45567999999975

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.54  E-value=7.1e-14  Score=128.74  Aligned_cols=158  Identities=12%  Similarity=0.075  Sum_probs=94.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC--CCCC-----------CCCC------------------cceeeEEEEEEEC
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE--KEQG-----------GSPG------------------EGLNMMDKTLLVR  128 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~--~~~~-----------~~~t------------------~~~~~~~~~~~~~  128 (268)
                      ....++|+++|..++|||||+.+|+...  ....           ...+                  -|.+.......+.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~  103 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFS  103 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEec
Confidence            3446999999999999999999997542  1100           0000                  1112222222233


Q ss_pred             CeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccch
Q 041042          129 GARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQ  208 (268)
Q Consensus       129 ~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~  208 (268)
                      .....+.||||||++.|.......+..+|++++|+|++..-.-+....| ..+.... ..+.||+.||+|+... ..+..
T Consensus       104 ~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~-~l~~~lg-~~~iIvvvNKiD~~~~-~~~~~  180 (474)
T PRK05124        104 TEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHS-FIATLLG-IKHLVVAVNKMDLVDY-SEEVF  180 (474)
T ss_pred             cCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHH-HHHHHhC-CCceEEEEEeeccccc-hhHHH
Confidence            3445688999999998865444557899999999998754211111111 1122222 2244789999997211 11111


Q ss_pred             hchHHHHHHHHHHhC----CeEEEEcCCCCcCHHHH
Q 041042          209 WTIASQARAYAKALN----ATLFFSSATYNINVNKI  240 (268)
Q Consensus       209 ~~~~~~~~~~~~~~~----~~~~~~Sa~~~~~i~~~  240 (268)
                      ....++...+.+..+    ++++.+||++|.|+.++
T Consensus       181 ~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        181 ERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             HHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            122344555555443    77999999999999865

>COG2262 HflX GTPases [General function prediction only]

Probab=99.54  E-value=3.1e-13  Score=118.50  Aligned_cols=159  Identities=14%  Similarity=0.129  Sum_probs=107.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc--ccchhhh------hc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA--QDHLPVA------CK  154 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~--~~~~~~~------~~  154 (268)
                      ...|.++|-.|+|||||+|++++........--...+-..+.+.+.+ ...+.+-||-|--+.  ..+...|      ..
T Consensus       192 ~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~  270 (411)
T COG2262         192 IPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTLEEVK  270 (411)
T ss_pred             CCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHHHHhh
Confidence            46899999999999999999998764322222122344456666664 233668999994321  1122222      35


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATY  233 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  233 (268)
                      .||.++.|+|++++...+.+..-.+-+.......+| |+|.||+|+   +.+..      ....+....+ ..+.+||++
T Consensus       271 ~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~---~~~~~------~~~~~~~~~~-~~v~iSA~~  340 (411)
T COG2262         271 EADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDL---LEDEE------ILAELERGSP-NPVFISAKT  340 (411)
T ss_pred             cCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccc---cCchh------hhhhhhhcCC-CeEEEEecc
Confidence            899999999999998777777666666666544455 799999996   33321      1111122222 589999999


Q ss_pred             CcCHHHHHHHHHHHHhcCc
Q 041042          234 NINVNKILKFITAKLFDIP  252 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~~  252 (268)
                      |.|++.+++.|.+.+....
T Consensus       341 ~~gl~~L~~~i~~~l~~~~  359 (411)
T COG2262         341 GEGLDLLRERIIELLSGLR  359 (411)
T ss_pred             CcCHHHHHHHHHHHhhhcc
Confidence            9999999999999887554

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

Probab=99.53  E-value=1.4e-13  Score=118.24  Aligned_cols=145  Identities=14%  Similarity=0.083  Sum_probs=88.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCC------CCc----------ceeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGS------PGE----------GLNMMDKTLLVRGARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~------~t~----------~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      +|+++|.+|+|||||+++++.........      .|+          +.........+......+++|||+|+..|...
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~f~~~   80 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFVGE   80 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHHHHHH
Confidence            48999999999999999987532110000      000          11111111222223456889999999888778


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEE
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFF  228 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  228 (268)
                      ...+++.+|++++|+|+++.........|. .+...  +.|.++++||+|+.    .   ....+....+.+.++.+++.
T Consensus        81 ~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~-~~~~~--~~p~iivvNK~D~~----~---~~~~~~~~~l~~~~~~~~~~  150 (268)
T cd04170          81 TRAALRAADAALVVVSAQSGVEVGTEKLWE-FADEA--GIPRIIFINKMDRE----R---ADFDKTLAALQEAFGRPVVP  150 (268)
T ss_pred             HHHHHHHCCEEEEEEeCCCCCCHHHHHHHH-HHHHc--CCCEEEEEECCccC----C---CCHHHHHHHHHHHhCCCeEE
Confidence            888999999999999998876554433332 33322  44567999999962    1   12233444555556655443


Q ss_pred             --EcCCCCcCHHH
Q 041042          229 --SSATYNINVNK  239 (268)
Q Consensus       229 --~Sa~~~~~i~~  239 (268)
                        +...+|.++..
T Consensus       151 ~~ip~~~~~~~~~  163 (268)
T cd04170         151 LQLPIGEGDDFKG  163 (268)
T ss_pred             EEecccCCCceeE
Confidence              44455544433

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

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.53  E-value=1.1e-13  Score=125.34  Aligned_cols=153  Identities=13%  Similarity=0.106  Sum_probs=92.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC--CCCC-----------CCC------------------CcceeeEEEEEEECCeEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE--KEQG-----------GSP------------------GEGLNMMDKTLLVRGARI  132 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~--~~~~-----------~~~------------------t~~~~~~~~~~~~~~~~~  132 (268)
                      ++|+++|..++|||||+.+|+...  ....           ...                  .-|.+.......+.....
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~   80 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDKR   80 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCCe
Confidence            589999999999999999996432  1000           000                  011112222222333445


Q ss_pred             EEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchH
Q 041042          133 SYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIA  212 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~  212 (268)
                      ++.++||||+++|.......+..+|++|+|+|+.....-+....| ..+.... ....||+.||+|+... ..+......
T Consensus        81 ~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~-~~~~~~~-~~~iivviNK~D~~~~-~~~~~~~i~  157 (406)
T TIGR02034        81 KFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHS-YIASLLG-IRHVVLAVNKMDLVDY-DEEVFENIK  157 (406)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHH-HHHHHcC-CCcEEEEEEecccccc-hHHHHHHHH
Confidence            788999999999866555678899999999998754322111112 1222222 2234689999997311 011111224


Q ss_pred             HHHHHHHHHhC---CeEEEEcCCCCcCHHH
Q 041042          213 SQARAYAKALN---ATLFFSSATYNINVNK  239 (268)
Q Consensus       213 ~~~~~~~~~~~---~~~~~~Sa~~~~~i~~  239 (268)
                      ++...+.+..+   ++++.+||++|+|+++
T Consensus       158 ~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       158 KDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence            45555555554   4699999999999986

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).

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.53  E-value=3.4e-13  Score=121.29  Aligned_cols=83  Identities=18%  Similarity=0.298  Sum_probs=58.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCC------CCcceeeEEEEE---------------EECC-eEEEEEEEeCCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGS------PGEGLNMMDKTL---------------LVRG-ARISYSIWEVTG  141 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~------~t~~~~~~~~~~---------------~~~~-~~~~l~i~Dt~G  141 (268)
                      +||.++|.||||||||+|++++..+.....      |++|..+....+               ..++ ..+.+++||+||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            699999999999999999999887643222      333332211100               0112 336799999999


Q ss_pred             c----cccccchhhh---hcCCcEEEEEEeCC
Q 041042          142 D----AKAQDHLPVA---CKDSIAILFMFDLT  166 (268)
Q Consensus       142 ~----~~~~~~~~~~---~~~a~~vilv~D~~  166 (268)
                      .    +....+...|   ++++|++++|+|+.
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            4    3445566667   88999999999996

>TIGR00503 prfC peptide chain release factor 3

Probab=99.53  E-value=2.8e-13  Score=125.99  Aligned_cols=117  Identities=10%  Similarity=0.079  Sum_probs=80.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhc--CCCCC---------------C---CCCCcceeeEEEEEEECCeEEEEEEEeCC
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVG--DEKEQ---------------G---GSPGEGLNMMDKTLLVRGARISYSIWEVT  140 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~--~~~~~---------------~---~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~  140 (268)
                      ....+|+|+|.+++|||||+++++.  +....               +   .....|.++....+.++...+.+++|||+
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTP   88 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTP   88 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECC
Confidence            3457999999999999999999853  11100               0   00112444444455566667889999999


Q ss_pred             CccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       141 G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      |+..|......+++.+|++|+|+|+++.-. .....+++..+.  .+.|.|+++||+|+.
T Consensus        89 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~--~~~PiivviNKiD~~  145 (527)
T TIGR00503        89 GHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL--RDTPIFTFMNKLDRD  145 (527)
T ss_pred             ChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh--cCCCEEEEEECcccc
Confidence            999988777778999999999999987421 223344444433  245567999999974

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.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.52  E-value=2.8e-13  Score=125.97  Aligned_cols=117  Identities=10%  Similarity=0.083  Sum_probs=80.0

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhc--CCC------C---------CCCCC---CcceeeEEEEEEECCeEEEEEEEeCC
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVG--DEK------E---------QGGSP---GEGLNMMDKTLLVRGARISYSIWEVT  140 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~--~~~------~---------~~~~~---t~~~~~~~~~~~~~~~~~~l~i~Dt~  140 (268)
                      ....+|+|+|..++|||||+++|+.  +..      .         .++.+   ..|.++......++...+.+++|||+
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTP   87 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTP   87 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECC
Confidence            3457999999999999999999963  111      0         00000   11333444444455556779999999


Q ss_pred             CccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       141 G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      |++.|......+++.+|++|+|+|+++...- ....++.....  .+.|+++++||+|+.
T Consensus        88 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~~--~~iPiiv~iNK~D~~  144 (526)
T PRK00741         88 GHEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCRL--RDTPIFTFINKLDRD  144 (526)
T ss_pred             CchhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHHh--cCCCEEEEEECCccc
Confidence            9999988778889999999999999875322 23344444433  245567999999975

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.52  E-value=3.4e-13  Score=121.41  Aligned_cols=166  Identities=14%  Similarity=0.159  Sum_probs=122.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCC--CCC-----CC------CCCcceeeEEEEE---EECCeEEEEEEEeCCCccccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDE--KEQ-----GG------SPGEGLNMMDKTL---LVRGARISYSIWEVTGDAKAQ  146 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~--~~~-----~~------~~t~~~~~~~~~~---~~~~~~~~l~i~Dt~G~~~~~  146 (268)
                      .-++.||-.-.-|||||..+++.-.  ...     +.      ...-|.+...++.   ..+|+.+.++++||||+-+|.
T Consensus        60 iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHvDFs  139 (650)
T KOG0462|consen   60 IRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHVDFS  139 (650)
T ss_pred             ccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCccccc
Confidence            3578888888999999999986421  111     00      0112444433332   224777999999999999999


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeE
Q 041042          147 DHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATL  226 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  226 (268)
                      ......+..|+++|+|+|++..---+.+..++..+..   +-.+|.|.||+|+    +......+..++.++....+.+.
T Consensus       140 ~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~---~L~iIpVlNKIDl----p~adpe~V~~q~~~lF~~~~~~~  212 (650)
T KOG0462|consen  140 GEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEA---GLAIIPVLNKIDL----PSADPERVENQLFELFDIPPAEV  212 (650)
T ss_pred             ceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHc---CCeEEEeeeccCC----CCCCHHHHHHHHHHHhcCCccce
Confidence            9999999999999999999876554555555444433   5567899999995    55555566777777777777889


Q ss_pred             EEEcCCCCcCHHHHHHHHHHHHhcCccch
Q 041042          227 FFSSATYNINVNKILKFITAKLFDIPWTL  255 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~i~~~~~~~  255 (268)
                      +.+|||+|.|++++++.+++.+.......
T Consensus       213 i~vSAK~G~~v~~lL~AII~rVPpP~~~~  241 (650)
T KOG0462|consen  213 IYVSAKTGLNVEELLEAIIRRVPPPKGIR  241 (650)
T ss_pred             EEEEeccCccHHHHHHHHHhhCCCCCCCC
Confidence            99999999999999999999988766433

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.52  E-value=5.3e-13  Score=113.89  Aligned_cols=160  Identities=16%  Similarity=0.149  Sum_probs=105.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc--cc---cchhh---hh-
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK--AQ---DHLPV---AC-  153 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--~~---~~~~~---~~-  153 (268)
                      ..-|+|.|.||||||||++.+.+.+......|-+........+  +....++|++||||.=+  ..   .+-.+   .+ 
T Consensus       168 ~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhf--e~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~  245 (346)
T COG1084         168 LPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHF--ERGYLRIQVIDTPGLLDRPLEERNEIERQAILALR  245 (346)
T ss_pred             CCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeee--ecCCceEEEecCCcccCCChHHhcHHHHHHHHHHH
Confidence            3579999999999999999999988665555522222222222  33445799999999321  11   11111   11 


Q ss_pred             cCCcEEEEEEeCCChh--hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh-CCeEEEEc
Q 041042          154 KDSIAILFMFDLTSRC--TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-NATLFFSS  230 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~--s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~S  230 (268)
                      .-+++|+++||.+..+  +.+.-...+++++..-. .|.++|.||+|+    .+   ....+++......- +.....++
T Consensus       246 hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~-~p~v~V~nK~D~----~~---~e~~~~~~~~~~~~~~~~~~~~~  317 (346)
T COG1084         246 HLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK-APIVVVINKIDI----AD---EEKLEEIEASVLEEGGEEPLKIS  317 (346)
T ss_pred             HhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC-CCeEEEEecccc----cc---hhHHHHHHHHHHhhcccccccee
Confidence            2358999999998766  45665677888877665 566799999995    21   12223333334444 44478899


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCc
Q 041042          231 ATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +..+.+++.+-..+...+.+.-
T Consensus       318 ~~~~~~~d~~~~~v~~~a~~~~  339 (346)
T COG1084         318 ATKGCGLDKLREEVRKTALEPL  339 (346)
T ss_pred             eeehhhHHHHHHHHHHHhhchh
Confidence            9999999988888877766553

>CHL00071 tufA elongation factor Tu

Probab=99.52  E-value=4.8e-13  Score=121.48  Aligned_cols=151  Identities=10%  Similarity=0.091  Sum_probs=96.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCC------C--------CCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQ------G--------GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ  146 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~------~--------~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~  146 (268)
                      ...++|+++|..++|||||+++|++..-..      .        ....-|.+.......+..+...+.+.||||+..|.
T Consensus        10 ~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~~~~   89 (409)
T CHL00071         10 KPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYV   89 (409)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChHHHH
Confidence            345999999999999999999998641100      0        00012333333333344445567899999998886


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCCCCccc-hhchHHHHHHHHHHhC-
Q 041042          147 DHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQLPIDL-QWTIASQARAYAKALN-  223 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~-  223 (268)
                      ......+..+|++++|+|+...-. ......+..+...  +.+ .|++.||+|+   ...+. .....+++..+.+..+ 
T Consensus        90 ~~~~~~~~~~D~~ilVvda~~g~~-~qt~~~~~~~~~~--g~~~iIvvvNK~D~---~~~~~~~~~~~~~l~~~l~~~~~  163 (409)
T CHL00071         90 KNMITGAAQMDGAILVVSAADGPM-PQTKEHILLAKQV--GVPNIVVFLNKEDQ---VDDEELLELVELEVRELLSKYDF  163 (409)
T ss_pred             HHHHHHHHhCCEEEEEEECCCCCc-HHHHHHHHHHHHc--CCCEEEEEEEccCC---CCHHHHHHHHHHHHHHHHHHhCC
Confidence            666667789999999999976432 1222233333332  345 3588999997   32221 1223456777777654 


Q ss_pred             ----CeEEEEcCCCCcCH
Q 041042          224 ----ATLFFSSATYNINV  237 (268)
Q Consensus       224 ----~~~~~~Sa~~~~~i  237 (268)
                          ++++.+||.+|.|+
T Consensus       164 ~~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        164 PGDDIPIVSGSALLALEA  181 (409)
T ss_pred             CCCcceEEEcchhhcccc
Confidence                67899999998753

>PLN03126 Elongation factor Tu; Provisional

Probab=99.51  E-value=3.5e-13  Score=123.90  Aligned_cols=152  Identities=11%  Similarity=0.091  Sum_probs=98.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC------CCCCC--------CCCcceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE------KEQGG--------SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~------~~~~~--------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      ....++|+++|..++|||||+++|+...      ....+        ...-|.+.......++.....+.++|++|+++|
T Consensus        78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f  157 (478)
T PLN03126         78 KKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADY  157 (478)
T ss_pred             cCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHH
Confidence            4456899999999999999999998521      11100        111233333333333334557889999999998


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCCCCccc-hhchHHHHHHHHHHh-
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQLPIDL-QWTIASQARAYAKAL-  222 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~-  222 (268)
                      .......+..+|++++|+|+.+...-+ ..+++..+...  +.+ .|++.||+|+   .+.+. .....+++..+.+.. 
T Consensus       158 ~~~~~~g~~~aD~ailVVda~~G~~~q-t~e~~~~~~~~--gi~~iIvvvNK~Dl---~~~~~~~~~i~~~i~~~l~~~g  231 (478)
T PLN03126        158 VKNMITGAAQMDGAILVVSGADGPMPQ-TKEHILLAKQV--GVPNMVVFLNKQDQ---VDDEELLELVELEVRELLSSYE  231 (478)
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCcHH-HHHHHHHHHHc--CCCeEEEEEecccc---cCHHHHHHHHHHHHHHHHHhcC
Confidence            766666678899999999988653322 23334444333  344 3588999997   32221 223355677777664 


Q ss_pred             ----CCeEEEEcCCCCcCH
Q 041042          223 ----NATLFFSSATYNINV  237 (268)
Q Consensus       223 ----~~~~~~~Sa~~~~~i  237 (268)
                          +++++.+||.+|.|+
T Consensus       232 ~~~~~~~~vp~Sa~~g~n~  250 (478)
T PLN03126        232 FPGDDIPIISGSALLALEA  250 (478)
T ss_pred             CCcCcceEEEEEccccccc
Confidence                467899999988543

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.50  E-value=2.7e-13  Score=124.00  Aligned_cols=156  Identities=12%  Similarity=0.088  Sum_probs=102.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC--CCC------------------------CCCC---CcceeeEEEEEEECCeE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE--KEQ------------------------GGSP---GEGLNMMDKTLLVRGAR  131 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~--~~~------------------------~~~~---t~~~~~~~~~~~~~~~~  131 (268)
                      ...+.|+++|..++|||||+.+|+...  ...                        +..+   .-|.+.......+....
T Consensus         5 k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~~   84 (447)
T PLN00043          5 KVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETTK   84 (447)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCCC
Confidence            345899999999999999999886421  000                        0000   01222222233344556


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHH-------HHHHHHHHHHHhCCCCce-EEEEeCCCCCC-C
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLK-------SVIRWYQQARKCNQTAIP-IIIGTKFDDFI-Q  202 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~-------~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~-~  202 (268)
                      ..+.+.|+||+++|.......+..+|++|+|+|+++ ..|+       ...+.+..+..  .+.++ ||+.||+|+.. .
T Consensus        85 ~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~-G~~e~g~~~~~qT~eh~~~~~~--~gi~~iIV~vNKmD~~~~~  161 (447)
T PLN00043         85 YYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTT-GGFEAGISKDGQTREHALLAFT--LGVKQMICCCNKMDATTPK  161 (447)
T ss_pred             EEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEccc-CceecccCCCchHHHHHHHHHH--cCCCcEEEEEEcccCCchh
Confidence            778999999999998888888999999999999986 3343       22222222222  24444 68899999620 0


Q ss_pred             CCccchhchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHH
Q 041042          203 LPIDLQWTIASQARAYAKALN-----ATLFFSSATYNINVNK  239 (268)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~  239 (268)
                      ...++-..+.++++.++++.|     ++|+++||++|+|+.+
T Consensus       162 ~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        162 YSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             hhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            111222334678888888877     6799999999999854

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.50  E-value=3e-13  Score=129.18  Aligned_cols=157  Identities=14%  Similarity=0.103  Sum_probs=93.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC--CCCC----------CCCC-------------------cceeeEEEEEEEC
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE--KEQG----------GSPG-------------------EGLNMMDKTLLVR  128 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~--~~~~----------~~~t-------------------~~~~~~~~~~~~~  128 (268)
                      ....++|+++|.+++|||||+++|+...  ....          ...+                   -|.+.......+.
T Consensus        21 ~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~  100 (632)
T PRK05506         21 RKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFA  100 (632)
T ss_pred             CCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEc
Confidence            3445899999999999999999998642  1100          0000                   0111111112223


Q ss_pred             CeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccch
Q 041042          129 GARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQ  208 (268)
Q Consensus       129 ~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~  208 (268)
                      .....+.++||||++.|.......+..+|++++|+|+++...-+. .+.+..+.... ..+.|||.||+|+.+. ..+..
T Consensus       101 ~~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t-~e~~~~~~~~~-~~~iivvvNK~D~~~~-~~~~~  177 (632)
T PRK05506        101 TPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQT-RRHSFIASLLG-IRHVVLAVNKMDLVDY-DQEVF  177 (632)
T ss_pred             cCCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccC-HHHHHHHHHhC-CCeEEEEEEecccccc-hhHHH
Confidence            334467899999999886555556789999999999975432111 11122222221 2334689999997210 01111


Q ss_pred             hchHHHHHHHHHHhCC---eEEEEcCCCCcCHHH
Q 041042          209 WTIASQARAYAKALNA---TLFFSSATYNINVNK  239 (268)
Q Consensus       209 ~~~~~~~~~~~~~~~~---~~~~~Sa~~~~~i~~  239 (268)
                      .....++.++.+..+.   +++.+||++|.|+.+
T Consensus       178 ~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        178 DEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            1234455556666654   589999999999974

>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=99.49  E-value=9.3e-14  Score=111.12  Aligned_cols=117  Identities=19%  Similarity=0.250  Sum_probs=71.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEE-CCeEEEEEEEeCCCccccccchhh---hhcCCcEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV-RGARISYSIWEVTGDAKAQDHLPV---ACKDSIAI  159 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~---~~~~a~~v  159 (268)
                      --|+++|++|+|||+|..+|..+.+.+...+. ..+   ....+ +.....+.+.|+||+++.+...-.   +...+.+|
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e~n---~~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~I   79 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-ENN---IAYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGI   79 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B---S-SEE---EECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEE
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-cCC---ceEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEE
Confidence            36899999999999999999998654444332 111   11112 223345889999999998764333   47889999


Q ss_pred             EEEEeCCC-hhhHHHHHHHHHHHHHh---CCCCceE-EEEeCCCCCCCCC
Q 041042          160 LFMFDLTS-RCTLKSVIRWYQQARKC---NQTAIPI-IIGTKFDDFIQLP  204 (268)
Q Consensus       160 ilv~D~~~-~~s~~~~~~~~~~i~~~---~~~~~~i-lvgnK~Dl~~~~~  204 (268)
                      |+|+|.+. ...+.++.+++-.+...   ..+.+|| |++||.|+....+
T Consensus        80 IfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~~  129 (181)
T PF09439_consen   80 IFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAKP  129 (181)
T ss_dssp             EEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT---
T ss_pred             EEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccCC
Confidence            99999874 45566666555554333   3466675 8999999854433

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.

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.49  E-value=5.7e-13  Score=120.37  Aligned_cols=157  Identities=10%  Similarity=0.087  Sum_probs=107.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC-CeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .=|+++|.---|||||+..+-+..........+.-......+..+ +....+.|+||||++.|..|+..-..-+|++|||
T Consensus         6 PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaILV   85 (509)
T COG0532           6 PVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAILV   85 (509)
T ss_pred             CEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEEEE
Confidence            458899999999999999998887765555544444444455554 2334588999999999999999888889999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHh-CCCCceEEEEeCCCCCCCCCccchhchHHHHHHH---HHHhC--CeEEEEcCCCCcC
Q 041042          163 FDLTSRCTLKSVIRWYQQARKC-NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAY---AKALN--ATLFFSSATYNIN  236 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~---~~~~~--~~~~~~Sa~~~~~  236 (268)
                      +|++|.--    .+..+.+... ..+.|.||+.||+|..    +........+.+++   .+.++  ..++.+||++|+|
T Consensus        86 Va~dDGv~----pQTiEAI~hak~a~vP~iVAiNKiDk~----~~np~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~G  157 (509)
T COG0532          86 VAADDGVM----PQTIEAINHAKAAGVPIVVAINKIDKP----EANPDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEG  157 (509)
T ss_pred             EEccCCcc----hhHHHHHHHHHHCCCCEEEEEecccCC----CCCHHHHHHHHHHcCCCHhhcCCceEEEEeeccCCCC
Confidence            99987321    1222223322 2356667999999963    22211222222221   23332  4688999999999


Q ss_pred             HHHHHHHHHHHH
Q 041042          237 VNKILKFITAKL  248 (268)
Q Consensus       237 i~~~f~~l~~~i  248 (268)
                      +++++..+.-..
T Consensus       158 i~eLL~~ill~a  169 (509)
T COG0532         158 IDELLELILLLA  169 (509)
T ss_pred             HHHHHHHHHHHH
Confidence            999999976543

>PRK00049 elongation factor Tu; Reviewed

Probab=99.48  E-value=1.4e-12  Score=117.94  Aligned_cols=162  Identities=10%  Similarity=0.105  Sum_probs=101.7

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCC---C--------C---CCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKE---Q--------G---GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ  146 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~---~--------~---~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~  146 (268)
                      ...++|+++|..++|||||+++|++....   .        +   ....-|.+.......+......+.+.||||+.+|.
T Consensus        10 ~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~f~   89 (396)
T PRK00049         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADYV   89 (396)
T ss_pred             CCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHHHH
Confidence            44689999999999999999999863100   0        0   00012333333334444445567899999998886


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceE-EEEeCCCCCCCCCccc-hhchHHHHHHHHHHhC-
Q 041042          147 DHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFIQLPIDL-QWTIASQARAYAKALN-  223 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~i-lvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~-  223 (268)
                      ......+..+|++++|+|+.+...- .....+..+...  +.+.+ ++.||+|+.   ..+. ......++..+....+ 
T Consensus        90 ~~~~~~~~~aD~~llVVDa~~g~~~-qt~~~~~~~~~~--g~p~iiVvvNK~D~~---~~~~~~~~~~~~i~~~l~~~~~  163 (396)
T PRK00049         90 KNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQV--GVPYIVVFLNKCDMV---DDEELLELVEMEVRELLSKYDF  163 (396)
T ss_pred             HHHHhhhccCCEEEEEEECCCCCch-HHHHHHHHHHHc--CCCEEEEEEeecCCc---chHHHHHHHHHHHHHHHHhcCC
Confidence            6666667899999999999764322 222333444332  34544 689999972   2111 1123445666665543 


Q ss_pred             ----CeEEEEcCCCCc----------CHHHHHHHHHHHH
Q 041042          224 ----ATLFFSSATYNI----------NVNKILKFITAKL  248 (268)
Q Consensus       224 ----~~~~~~Sa~~~~----------~i~~~f~~l~~~i  248 (268)
                          ++++.+||++|.          ++.++++.|...+
T Consensus       164 ~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~~  202 (396)
T PRK00049        164 PGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDSYI  202 (396)
T ss_pred             CccCCcEEEeecccccCCCCcccccccHHHHHHHHHhcC
Confidence                678999999875          4566666665543

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

Probab=99.45  E-value=1e-12  Score=112.74  Aligned_cols=112  Identities=13%  Similarity=0.112  Sum_probs=73.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC--CC-----------CCCCC---CcceeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE--KE-----------QGGSP---GEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~--~~-----------~~~~~---t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      .|+++|.+|+|||||+++++...  ..           .++.+   .-|.+.......+.-...++++|||||+..|...
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~~   80 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIE   80 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHHH
Confidence            37899999999999999996421  00           00000   1122222222222223467889999999988888


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      +..+++.+|++|+|+|+++...-+. ...+..+...  +.|.+++.||+|+
T Consensus        81 ~~~~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~~--~~p~ivviNK~D~  128 (270)
T cd01886          81 VERSLRVLDGAVAVFDAVAGVEPQT-ETVWRQADRY--NVPRIAFVNKMDR  128 (270)
T ss_pred             HHHHHHHcCEEEEEEECCCCCCHHH-HHHHHHHHHc--CCCEEEEEECCCC
Confidence            8889999999999999977432222 2333334332  3456899999996

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

>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=99.45  E-value=1.9e-12  Score=96.87  Aligned_cols=104  Identities=12%  Similarity=0.218  Sum_probs=66.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCC-C-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc----------ccchhhh
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEK-E-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA----------QDHLPVA  152 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~-~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~----------~~~~~~~  152 (268)
                      ||+|+|.+|+|||||+|.|++... . .....++ .......+.+++..+  .++||+|...-          ..... .
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T-~~~~~~~~~~~~~~~--~~vDtpG~~~~~~~~~~~~~~~~~~~-~   76 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTT-RDPVYGQFEYNNKKF--ILVDTPGINDGESQDNDGKEIRKFLE-Q   76 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSS-SSEEEEEEEETTEEE--EEEESSSCSSSSHHHHHHHHHHHHHH-H
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccce-eeeeeeeeeeceeeE--EEEeCCCCcccchhhHHHHHHHHHHH-H
Confidence            699999999999999999998642 1 2222222 222334555666664  69999995431          11222 3


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeC
Q 041042          153 CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTK  196 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK  196 (268)
                      +..+|++++|+|.++... +.....+++++   ...+.++|.||
T Consensus        77 ~~~~d~ii~vv~~~~~~~-~~~~~~~~~l~---~~~~~i~v~NK  116 (116)
T PF01926_consen   77 ISKSDLIIYVVDASNPIT-EDDKNILRELK---NKKPIILVLNK  116 (116)
T ss_dssp             HCTESEEEEEEETTSHSH-HHHHHHHHHHH---TTSEEEEEEES
T ss_pred             HHHCCEEEEEEECCCCCC-HHHHHHHHHHh---cCCCEEEEEcC
Confidence            478999999999877322 22233334442   35566799998

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 ....

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.45  E-value=3.4e-12  Score=116.51  Aligned_cols=180  Identities=22%  Similarity=0.377  Sum_probs=128.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC--CeEEEEEEEeCCCccccccchhhhhcCC----
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR--GARISYSIWEVTGDAKAQDHLPVACKDS----  156 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~l~i~Dt~G~~~~~~~~~~~~~~a----  156 (268)
                      .-.|+|+|+.++||||||.+|.+.+   .+.++.|.+|....+.-+  +...++.+|-..|...+..+.+..+...    
T Consensus        25 ~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~  101 (472)
T PF05783_consen   25 EKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPN  101 (472)
T ss_pred             CceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccc
Confidence            3589999999999999999987643   455677777765544322  2345789999998777777766555432    


Q ss_pred             cEEEEEEeCCChhhH-HHHHHHHHHHHHh-------------------------------C----C------------C-
Q 041042          157 IAILFMFDLTSRCTL-KSVIRWYQQARKC-------------------------------N----Q------------T-  187 (268)
Q Consensus       157 ~~vilv~D~~~~~s~-~~~~~~~~~i~~~-------------------------------~----~------------~-  187 (268)
                      -.||+|.|.+.+..+ +.+.+|+..++.+                               .    +            . 
T Consensus       102 t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~  181 (472)
T PF05783_consen  102 TLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDES  181 (472)
T ss_pred             eEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCccccccccccccccc
Confidence            478899999998764 5666776654321                               0    0            0 


Q ss_pred             --------------Cce-EEEEeCCCCCCCCCc------cchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHH
Q 041042          188 --------------AIP-IIIGTKFDDFIQLPI------DLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       188 --------------~~~-ilvgnK~Dl~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                                    .+| +||++|+|....+..      +.-..+.+.++.+|-.+|+.+|.||++...|++-++.+|.+
T Consensus       182 ~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h  261 (472)
T PF05783_consen  182 VLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILH  261 (472)
T ss_pred             ccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHH
Confidence                          135 599999996432221      12234577789999999999999999999999999999999


Q ss_pred             HHhcCccchhcccCCCCCC
Q 041042          247 KLFDIPWTLERNLTIGEPI  265 (268)
Q Consensus       247 ~i~~~~~~~~~~~~~~~~i  265 (268)
                      .++..+.....+....+.|
T Consensus       262 ~l~~~~f~~~~~vv~~d~i  280 (472)
T PF05783_consen  262 RLYGFPFKTPAQVVERDAI  280 (472)
T ss_pred             HhccCCCCCCceeeccccc
Confidence            9998886655555444443

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.45  E-value=3.1e-12  Score=104.81  Aligned_cols=160  Identities=13%  Similarity=0.104  Sum_probs=98.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCC--CCcceeeEEEEEEECCeEEEEEEEeCCCcccccc--------c---hh
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGS--PGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD--------H---LP  150 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~--------~---~~  150 (268)
                      ++|+++|.+|||||||+|.+++........  +....+.......+++.  .+.++||||-.....        +   ..
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~~--~i~viDTPG~~d~~~~~~~~~~~i~~~~~   78 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDGR--RVNVIDTPGLFDTSVSPEQLSKEIVRCLS   78 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECCe--EEEEEECcCCCCccCChHHHHHHHHHHHH
Confidence            479999999999999999999876322221  11112222233344554  578999999544321        1   11


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCC---CCceEEEEeCCCCCCCCCccchhc----hHHHHHHHHHHhC
Q 041042          151 VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ---TAIPIIIGTKFDDFIQLPIDLQWT----IASQARAYAKALN  223 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~---~~~~ilvgnK~Dl~~~~~~~~~~~----~~~~~~~~~~~~~  223 (268)
                      ....+.|++|+|.|+.+ -+-++ ...++.+.+...   -...|+|.|++|.   +.......    .....+.+.+..+
T Consensus        79 ~~~~g~~~illVi~~~~-~t~~d-~~~l~~l~~~fg~~~~~~~ivv~T~~d~---l~~~~~~~~~~~~~~~l~~l~~~c~  153 (196)
T cd01852          79 LSAPGPHAFLLVVPLGR-FTEEE-EQAVETLQELFGEKVLDHTIVLFTRGDD---LEGGTLEDYLENSCEALKRLLEKCG  153 (196)
T ss_pred             hcCCCCEEEEEEEECCC-cCHHH-HHHHHHHHHHhChHhHhcEEEEEECccc---cCCCcHHHHHHhccHHHHHHHHHhC
Confidence            22467899999999876 32222 223344433322   2345789999995   32221111    1355677777777


Q ss_pred             CeEEEEc-----CCCCcCHHHHHHHHHHHHhc
Q 041042          224 ATLFFSS-----ATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       224 ~~~~~~S-----a~~~~~i~~~f~~l~~~i~~  250 (268)
                      -.|+..+     +..+.+++++++.+.+.+.+
T Consensus       154 ~r~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         154 GRYVAFNNKAKGEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             CeEEEEeCCCCcchhHHHHHHHHHHHHHHHHh
Confidence            6665544     55678899999999888876

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).

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.45  E-value=6.5e-13  Score=112.41  Aligned_cols=96  Identities=14%  Similarity=0.145  Sum_probs=77.6

Q ss_pred             cccccchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH
Q 041042          143 AKAQDHLPVACKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA  221 (268)
Q Consensus       143 ~~~~~~~~~~~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~  221 (268)
                      ++|..+.+.+++++|++++|||++++. +|+.+.+|+..+..  .+.+++||+||+||.   ++  .....+.+..+. .
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~--~~i~~vIV~NK~DL~---~~--~~~~~~~~~~~~-~   95 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA--QNIEPIIVLNKIDLL---DD--EDMEKEQLDIYR-N   95 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH--CCCCEEEEEECcccC---CC--HHHHHHHHHHHH-H
Confidence            788889999999999999999999887 89999999987654  456778999999972   21  222234455454 5


Q ss_pred             hCCeEEEEcCCCCcCHHHHHHHHHH
Q 041042          222 LNATLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       222 ~~~~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                      .+++++++||++|.|++++|+.+..
T Consensus        96 ~g~~v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        96 IGYQVLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             CCCeEEEEecCCchhHHHHHhhhcC
Confidence            8899999999999999999998763

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.44  E-value=2.9e-12  Score=108.92  Aligned_cols=172  Identities=24%  Similarity=0.377  Sum_probs=122.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEE--CCeEEEEEEEeCCCccccccchhhhhcCC----
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV--RGARISYSIWEVTGDAKAQDHLPVACKDS----  156 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a----  156 (268)
                      .-.|+|+|+.++|||||+.++-+.+   .+.+.-|..|....+.-  .+...++.+|-..|.--...+....+...    
T Consensus        52 gk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~ae  128 (473)
T KOG3905|consen   52 GKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLAE  128 (473)
T ss_pred             CCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCccc
Confidence            3579999999999999999998765   33444455554444332  23346788999999776666666555433    


Q ss_pred             cEEEEEEeCCChhh-HHHHHHHHHHHHHhCC-------------------------------------------------
Q 041042          157 IAILFMFDLTSRCT-LKSVIRWYQQARKCNQ-------------------------------------------------  186 (268)
Q Consensus       157 ~~vilv~D~~~~~s-~~~~~~~~~~i~~~~~-------------------------------------------------  186 (268)
                      -.||++.|.+++.. ++.+++|..-+.++..                                                 
T Consensus       129 tlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~~  208 (473)
T KOG3905|consen  129 TLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEHV  208 (473)
T ss_pred             eEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCcccccc
Confidence            37889999999954 6778888775543200                                                 


Q ss_pred             ------------CCce-EEEEeCCCCCCCCC------ccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHH
Q 041042          187 ------------TAIP-IIIGTKFDDFIQLP------IDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       187 ------------~~~~-ilvgnK~Dl~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                                  -.++ +||.+|||....+.      ++.-..+...++.||-.+|...+.+|+|...|++-++.+|+++
T Consensus       209 llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr  288 (473)
T KOG3905|consen  209 LLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHR  288 (473)
T ss_pred             ccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHH
Confidence                        0234 59999999632111      1122344677899999999999999999999999999999999


Q ss_pred             HhcCccchhc
Q 041042          248 LFDIPWTLER  257 (268)
Q Consensus       248 i~~~~~~~~~  257 (268)
                      ++.-+-+...
T Consensus       289 ~yG~~fttpA  298 (473)
T KOG3905|consen  289 SYGFPFTTPA  298 (473)
T ss_pred             hcCcccCCcc
Confidence            9887654444

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.44  E-value=1e-12  Score=117.13  Aligned_cols=165  Identities=15%  Similarity=0.188  Sum_probs=105.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc-cc--------ch
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA-QD--------HL  149 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~-~~--------~~  149 (268)
                      -...++|+|+|.||||||||+|.|.+++. .....+.+..|-..-.++++|.+  +.+.||+|-.+- ..        ..
T Consensus       265 lq~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G~~--v~L~DTAGiRe~~~~~iE~~gI~rA  342 (531)
T KOG1191|consen  265 LQSGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNGVP--VRLSDTAGIREESNDGIEALGIERA  342 (531)
T ss_pred             hhcCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCCeE--EEEEeccccccccCChhHHHhHHHH
Confidence            44468999999999999999999998863 23344433444444556677766  567999996541 11        12


Q ss_pred             hhhhcCCcEEEEEEeC--CChhhHHHHHHHHHHHHHhC-------CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH
Q 041042          150 PVACKDSIAILFMFDL--TSRCTLKSVIRWYQQARKCN-------QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK  220 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~--~~~~s~~~~~~~~~~i~~~~-------~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~  220 (268)
                      +.-++.||++++|+|+  ++-++-..+.+.++......       ...+.|++.||+|+...+++.....     ..+..
T Consensus       343 ~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~-----~~~~~  417 (531)
T KOG1191|consen  343 RKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIP-----VVYPS  417 (531)
T ss_pred             HHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCc-----eeccc
Confidence            3446789999999999  55555444445555443321       1245679999999853332211100     11111


Q ss_pred             HhC---C-eEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          221 ALN---A-TLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       221 ~~~---~-~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ..+   . ...++|+++++|++.+.+.+.+.+...
T Consensus       418 ~~~~~~~~i~~~vs~~tkeg~~~L~~all~~~~~~  452 (531)
T KOG1191|consen  418 AEGRSVFPIVVEVSCTTKEGCERLSTALLNIVERL  452 (531)
T ss_pred             cccCcccceEEEeeechhhhHHHHHHHHHHHHHHh
Confidence            111   2 245599999999999999888766543

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.43  E-value=7.4e-12  Score=106.62  Aligned_cols=154  Identities=18%  Similarity=0.196  Sum_probs=102.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc-------cchhhhhcCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ-------DHLPVACKDS  156 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-------~~~~~~~~~a  156 (268)
                      ..++++|.|+||||||++.+.+.+-.....+-+........+.++|  ..+|+.|+||.-.-.       ...-...++|
T Consensus        64 a~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~g--a~IQild~Pgii~gas~g~grG~~vlsv~R~A  141 (365)
T COG1163          64 ATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKG--AQIQLLDLPGIIEGASSGRGRGRQVLSVARNA  141 (365)
T ss_pred             eEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEeecC--ceEEEEcCcccccCcccCCCCcceeeeeeccC
Confidence            6899999999999999999998765444333222333334555555  458899999843221       1223457899


Q ss_pred             cEEEEEEeCCChhh-HHHHHHHHHHHH----H-------------------------------------h---CC-----
Q 041042          157 IAILFMFDLTSRCT-LKSVIRWYQQAR----K-------------------------------------C---NQ-----  186 (268)
Q Consensus       157 ~~vilv~D~~~~~s-~~~~~~~~~~i~----~-------------------------------------~---~~-----  186 (268)
                      |.+++|.|+....+ .+.+.+.++..-    +                                     +   +.     
T Consensus       142 DlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~Ir  221 (365)
T COG1163         142 DLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADVLIR  221 (365)
T ss_pred             CEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceEEEe
Confidence            99999999986554 444443333220    0                                     0   00     


Q ss_pred             --------------C--Cce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          187 --------------T--AIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       187 --------------~--~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                                    +  -.| ++|.||+|+   ..       .++...+.+..  .++.+||+.+.|++++.+.|.+.+-
T Consensus       222 ~dvTlDd~id~l~~nrvY~p~l~v~NKiD~---~~-------~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         222 EDVTLDDLIDALEGNRVYKPALYVVNKIDL---PG-------LEELERLARKP--NSVPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             cCCcHHHHHHHHhhcceeeeeEEEEecccc---cC-------HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhC
Confidence                          0  134 899999996   11       34455555555  7899999999999999999988764


Q ss_pred             cC
Q 041042          250 DI  251 (268)
Q Consensus       250 ~~  251 (268)
                      -.
T Consensus       290 li  291 (365)
T COG1163         290 LI  291 (365)
T ss_pred             eE
Confidence            43

>PLN03127 Elongation factor Tu; Provisional

Probab=99.43  E-value=7.5e-12  Score=114.47  Aligned_cols=162  Identities=12%  Similarity=0.114  Sum_probs=98.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcC------CCC----------CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGD------EKE----------QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA  143 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~------~~~----------~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~  143 (268)
                      ....++|+++|..++|||||+++|.+.      ...          .+...  |.+.......+......+.+.||||++
T Consensus        58 ~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~r--GiTi~~~~~~~~~~~~~i~~iDtPGh~  135 (447)
T PLN03127         58 TKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKAR--GITIATAHVEYETAKRHYAHVDCPGHA  135 (447)
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhc--CceeeeeEEEEcCCCeEEEEEECCCcc
Confidence            455789999999999999999999621      100          01112  333333344454455678899999998


Q ss_pred             ccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccc-hhchHHHHHHHHHH
Q 041042          144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDL-QWTIASQARAYAKA  221 (268)
Q Consensus       144 ~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~  221 (268)
                      +|..........+|++++|+|+++...-+ ..+.+..+...  +.+. |++.||+|+   ...+. .....+++.++...
T Consensus       136 ~f~~~~~~g~~~aD~allVVda~~g~~~q-t~e~l~~~~~~--gip~iIvviNKiDl---v~~~~~~~~i~~~i~~~l~~  209 (447)
T PLN03127        136 DYVKNMITGAAQMDGGILVVSAPDGPMPQ-TKEHILLARQV--GVPSLVVFLNKVDV---VDDEELLELVEMELRELLSF  209 (447)
T ss_pred             chHHHHHHHHhhCCEEEEEEECCCCCchh-HHHHHHHHHHc--CCCeEEEEEEeecc---CCHHHHHHHHHHHHHHHHHH
Confidence            87655545566799999999987643222 12222233322  3453 578999997   32211 11123345555544


Q ss_pred             h-----CCeEEEEcCC---CCcC-------HHHHHHHHHHHHh
Q 041042          222 L-----NATLFFSSAT---YNIN-------VNKILKFITAKLF  249 (268)
Q Consensus       222 ~-----~~~~~~~Sa~---~~~~-------i~~~f~~l~~~i~  249 (268)
                      .     .++++.+||.   +|.|       +.++++.+.+.+.
T Consensus       210 ~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        210 YKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             hCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhCC
Confidence            3     3678888875   5555       6777777766543

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.42  E-value=3.4e-12  Score=116.68  Aligned_cols=166  Identities=14%  Similarity=0.147  Sum_probs=103.2

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC---CCCCCCC--C--cceeeEEE--------EE---EEC-C-----------
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE---KEQGGSP--G--EGLNMMDK--------TL---LVR-G-----------  129 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~---~~~~~~~--t--~~~~~~~~--------~~---~~~-~-----------  129 (268)
                      ....+.|.++|.-..|||||+..|.+-.   +..+...  |  .|......        ..   ..+ +           
T Consensus        31 ~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (460)
T PTZ00327         31 RQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCG  110 (460)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCccccccccccc
Confidence            3456899999999999999999998632   1111111  1  12211100        00   000 0           


Q ss_pred             ----eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCC
Q 041042          130 ----ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLP  204 (268)
Q Consensus       130 ----~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~  204 (268)
                          ....+.+.|+||++.|....-.....+|++++|+|+++.. .-+. .+.+..+.... -.+.|||.||+|+   .+
T Consensus       111 ~~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT-~ehl~i~~~lg-i~~iIVvlNKiDl---v~  185 (460)
T PTZ00327        111 HKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQT-SEHLAAVEIMK-LKHIIILQNKIDL---VK  185 (460)
T ss_pred             ccccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhh-HHHHHHHHHcC-CCcEEEEEecccc---cC
Confidence                0236789999999998666666677999999999998631 1111 12222222221 2234789999997   32


Q ss_pred             ccchhchHHHHHHHHHH---hCCeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          205 IDLQWTIASQARAYAKA---LNATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~---~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      .+......+++.++.+.   .+.+++.+||++|.|++++++.|.+.+..
T Consensus       186 ~~~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp~  234 (460)
T PTZ00327        186 EAQAQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIPI  234 (460)
T ss_pred             HHHHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCCC
Confidence            22222334555555543   36789999999999999999999875543

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.42  E-value=3.1e-12  Score=113.59  Aligned_cols=162  Identities=12%  Similarity=0.136  Sum_probs=111.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC--C-----CCC------CCCCcceeeEEEEE--EE---CCeEEEEEEEeCCCcccc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE--K-----EQG------GSPGEGLNMMDKTL--LV---RGARISYSIWEVTGDAKA  145 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~--~-----~~~------~~~t~~~~~~~~~~--~~---~~~~~~l~i~Dt~G~~~~  145 (268)
                      -++.++-.-.-|||||..|++...  +     ..+      ....-|.+.....+  .+   +|+.+.|+++||||+-.|
T Consensus        10 RNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHVDF   89 (603)
T COG0481          10 RNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDF   89 (603)
T ss_pred             cceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCccce
Confidence            356778888899999999986521  1     011      11112333333322  22   568899999999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT  225 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (268)
                      .-.....+..|.+.++|+|++..-.-+.+.+.|..+..   +--+|-|.||+||    |......+.+++++..---...
T Consensus        90 sYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~---~LeIiPViNKIDL----P~Adpervk~eIe~~iGid~~d  162 (603)
T COG0481          90 SYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALEN---NLEIIPVLNKIDL----PAADPERVKQEIEDIIGIDASD  162 (603)
T ss_pred             EEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHc---CcEEEEeeecccC----CCCCHHHHHHHHHHHhCCCcch
Confidence            88888888999999999999986655666666665543   3345689999996    4333333344443332222234


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          226 LFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      .+.+|||+|.||+++++.|++.+....
T Consensus       163 av~~SAKtG~gI~~iLe~Iv~~iP~P~  189 (603)
T COG0481         163 AVLVSAKTGIGIEDVLEAIVEKIPPPK  189 (603)
T ss_pred             heeEecccCCCHHHHHHHHHhhCCCCC
Confidence            688999999999999999999988766

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.40  E-value=6.6e-12  Score=123.60  Aligned_cols=148  Identities=9%  Similarity=0.084  Sum_probs=92.8

Q ss_pred             ChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECC-e----------E-----EEEEEEeCCCccccccchhhhhcCCc
Q 041042           94 IGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRG-A----------R-----ISYSIWEVTGDAKAQDHLPVACKDSI  157 (268)
Q Consensus        94 vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~----------~-----~~l~i~Dt~G~~~~~~~~~~~~~~a~  157 (268)
                      ++||||+..+.+..........+........+..+. .          .     -.+.||||||++.|..+....+..+|
T Consensus       472 ~~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aD  551 (1049)
T PRK14845        472 VHNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLAD  551 (1049)
T ss_pred             cccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCC
Confidence            459999999988776544443332222222333321 0          0     12789999999999888888889999


Q ss_pred             EEEEEEeCCC---hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc-----------hhchHHHHH-------
Q 041042          158 AILFMFDLTS---RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL-----------QWTIASQAR-------  216 (268)
Q Consensus       158 ~vilv~D~~~---~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~-----------~~~~~~~~~-------  216 (268)
                      ++++|+|+++   ..+++.+..    +...  +.|.|+|+||+|+........           .....++..       
T Consensus       552 ivlLVVDa~~Gi~~qT~e~I~~----lk~~--~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~v~  625 (1049)
T PRK14845        552 LAVLVVDINEGFKPQTIEAINI----LRQY--KTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYELI  625 (1049)
T ss_pred             EEEEEEECcccCCHhHHHHHHH----HHHc--CCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHHHh
Confidence            9999999987   556655442    2222  446689999999842111000           000111111       


Q ss_pred             -HHHH------------Hh--CCeEEEEcCCCCcCHHHHHHHHHHH
Q 041042          217 -AYAK------------AL--NATLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       217 -~~~~------------~~--~~~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                       ++++            .+  .++++.+||++|+||++++..|...
T Consensus       626 ~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l  671 (1049)
T PRK14845        626 GKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGL  671 (1049)
T ss_pred             hHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHh
Confidence             1111            11  3578999999999999999877643

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.40  E-value=9.8e-12  Score=112.90  Aligned_cols=168  Identities=11%  Similarity=0.093  Sum_probs=127.6

Q ss_pred             CCCCCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcC
Q 041042           76 LDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKD  155 (268)
Q Consensus        76 ~~~~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~  155 (268)
                      ........+++.++|..++|||.|++.|+++.+...+..+....+....+.+.|+...+.+-|.+-. ....+...- ..
T Consensus       418 ~~~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~  495 (625)
T KOG1707|consen  418 KKQTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AA  495 (625)
T ss_pred             cccccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ce
Confidence            3444667899999999999999999999999988877778888887778888888888888888765 322232222 77


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe-EEEEcCCCC
Q 041042          156 SIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT-LFFSSATYN  234 (268)
Q Consensus       156 a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~  234 (268)
                      ||++.++||.+++.||+.+...++.-... ...|.++|++|+||    .+..++...+. .+++++++++ -...|.++.
T Consensus       496 cDv~~~~YDsS~p~sf~~~a~v~~~~~~~-~~~Pc~~va~K~dl----De~~Q~~~iqp-de~~~~~~i~~P~~~S~~~~  569 (625)
T KOG1707|consen  496 CDVACLVYDSSNPRSFEYLAEVYNKYFDL-YKIPCLMVATKADL----DEVPQRYSIQP-DEFCRQLGLPPPIHISSKTL  569 (625)
T ss_pred             eeeEEEecccCCchHHHHHHHHHHHhhhc-cCCceEEEeecccc----chhhhccCCCh-HHHHHhcCCCCCeeeccCCC
Confidence            99999999999999999988766654443 45555799999996    33333333333 8899999986 455777753


Q ss_pred             cCHHHHHHHHHHHHhcCc
Q 041042          235 INVNKILKFITAKLFDIP  252 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~~~  252 (268)
                      .. .++|..|+..+...+
T Consensus       570 ~s-~~lf~kL~~~A~~Ph  586 (625)
T KOG1707|consen  570 SS-NELFIKLATMAQYPH  586 (625)
T ss_pred             CC-chHHHHHHHhhhCCC
Confidence            33 899999998777665

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.40  E-value=6.8e-12  Score=114.84  Aligned_cols=157  Identities=11%  Similarity=0.089  Sum_probs=98.3

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcC--CCC------------------------CCCCC---CcceeeEEEEEEECCeE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGD--EKE------------------------QGGSP---GEGLNMMDKTLLVRGAR  131 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~--~~~------------------------~~~~~---t~~~~~~~~~~~~~~~~  131 (268)
                      ...++|+++|..++|||||+.+|+..  ...                        .+..+   .-|.+.......+....
T Consensus         5 k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~   84 (446)
T PTZ00141          5 KTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   84 (446)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCC
Confidence            44689999999999999999998752  110                        00000   01222222223344455


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh---hH---HHHHHHHHHHHHhCCCCce-EEEEeCCCCCC-CC
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC---TL---KSVIRWYQQARKCNQTAIP-IIIGTKFDDFI-QL  203 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~---s~---~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~-~~  203 (268)
                      ..+.|+||||+++|.......+..+|++++|+|+++..   .|   ....+-+..+...  ..+. ||+.||+|... ..
T Consensus        85 ~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~--gi~~iiv~vNKmD~~~~~~  162 (446)
T PTZ00141         85 YYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL--GVKQMIVCINKMDDKTVNY  162 (446)
T ss_pred             eEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc--CCCeEEEEEEccccccchh
Confidence            67899999999999777777788999999999997642   11   1112212222221  3444 58999999421 01


Q ss_pred             CccchhchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHH
Q 041042          204 PIDLQWTIASQARAYAKALN-----ATLFFSSATYNINVNK  239 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~  239 (268)
                      +++.-....+++..+....+     ++++.+||.+|+|+.+
T Consensus       163 ~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        163 SQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             hHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            12223344566666666554     5689999999999864

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.38  E-value=7.2e-12  Score=120.79  Aligned_cols=114  Identities=15%  Similarity=0.120  Sum_probs=76.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCC----CCCCC------------CcceeeEEEEEEECCeEEEEEEEeCCCccccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKE----QGGSP------------GEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ  146 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~----~~~~~------------t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~  146 (268)
                      -.+|+|+|..++|||||+++|+...-.    .....            .-|.+.......+.-...++++|||+|+.+|.
T Consensus        10 irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~~~   89 (689)
T TIGR00484        10 FRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVDFT   89 (689)
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcchh
Confidence            458999999999999999999642100    00000            01222222222222234678999999999988


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          147 DHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      .....+++.+|++|+|+|+++....+...-| ..+...  +.|.++++||+|+
T Consensus        90 ~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~-~~~~~~--~~p~ivviNK~D~  139 (689)
T TIGR00484        90 VEVERSLRVLDGAVAVLDAVGGVQPQSETVW-RQANRY--EVPRIAFVNKMDK  139 (689)
T ss_pred             HHHHHHHHHhCEEEEEEeCCCCCChhHHHHH-HHHHHc--CCCEEEEEECCCC
Confidence            8888899999999999999886555443333 333332  4566899999997

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.

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.37  E-value=1.3e-12  Score=116.58  Aligned_cols=164  Identities=13%  Similarity=0.159  Sum_probs=113.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc----ccchhhh-----hc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA----QDHLPVA-----CK  154 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~----~~~~~~~-----~~  154 (268)
                      -.++|+|.||||||||++.+..........+.+...+...  .++.+...+++.||||.-..    +....+.     ..
T Consensus       169 rTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vG--H~dykYlrwQViDTPGILD~plEdrN~IEmqsITALAH  246 (620)
T KOG1490|consen  169 RTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVG--HLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITALAH  246 (620)
T ss_pred             CeEEEecCCCCCcHhhcccccccccccCCcccccchhhhh--hhhhheeeeeecCCccccCcchhhhhHHHHHHHHHHHH
Confidence            4789999999999999999887766555554322222211  22445677899999994321    1111111     11


Q ss_pred             CCcEEEEEEeCCChhh--HHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch-HHHHHHHHHHhCCeEEEEcC
Q 041042          155 DSIAILFMFDLTSRCT--LKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI-ASQARAYAKALNATLFFSSA  231 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s--~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~Sa  231 (268)
                      --.+|+++.|++..+.  .+.--..++.|+..-.+.|.|+|.||+|+   +..+.-... .+-.+.+...-+++++++|+
T Consensus       247 LraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~~IlvlNK~D~---m~~edL~~~~~~ll~~~~~~~~v~v~~tS~  323 (620)
T KOG1490|consen  247 LRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKVTILVLNKIDA---MRPEDLDQKNQELLQTIIDDGNVKVVQTSC  323 (620)
T ss_pred             hhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcCCceEEEeecccc---cCccccCHHHHHHHHHHHhccCceEEEecc
Confidence            2258999999998874  44444778888877778888999999997   333333333 34445555556699999999


Q ss_pred             CCCcCHHHHHHHHHHHHhcCc
Q 041042          232 TYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      .+.+||.++....++.++..+
T Consensus       324 ~~eegVm~Vrt~ACe~LLa~R  344 (620)
T KOG1490|consen  324 VQEEGVMDVRTTACEALLAAR  344 (620)
T ss_pred             cchhceeeHHHHHHHHHHHHH
Confidence            999999999999998887765

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.36  E-value=8.7e-12  Score=100.18  Aligned_cols=158  Identities=16%  Similarity=0.182  Sum_probs=98.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhc---CCcEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACK---DSIAIL  160 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~---~a~~vi  160 (268)
                      -.|+++|..++|||+|..++..+.+...+.+. ..+  .....++...  ..+.|.||+.+.+.-...++.   .+-+++
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtSi-epn--~a~~r~gs~~--~~LVD~PGH~rlR~kl~e~~~~~~~akaiV  113 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHRGTVTSI-EPN--EATYRLGSEN--VTLVDLPGHSRLRRKLLEYLKHNYSAKAIV  113 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCccCeeeee-ccc--eeeEeecCcc--eEEEeCCCcHHHHHHHHHHccccccceeEE
Confidence            36899999999999999999888654333221 111  1222233333  678999999998766666666   789999


Q ss_pred             EEEeCCC-hhhHHHHHHHHHHHHHhC---CCCceE-EEEeCCCCCCCCCccchhch-HHHHHHHHH--------------
Q 041042          161 FMFDLTS-RCTLKSVIRWYQQARKCN---QTAIPI-IIGTKFDDFIQLPIDLQWTI-ASQARAYAK--------------  220 (268)
Q Consensus       161 lv~D~~~-~~s~~~~~~~~~~i~~~~---~~~~~i-lvgnK~Dl~~~~~~~~~~~~-~~~~~~~~~--------------  220 (268)
                      +|+|..- .....++.+++-.+...+   .+.+|| |+.||.|+.-.-+.+..+.. +.++..+-.              
T Consensus       114 FVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~~  193 (238)
T KOG0090|consen  114 FVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDIA  193 (238)
T ss_pred             EEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhcccccccc
Confidence            9999642 333444544444443332   566775 88999998533232211111 222222111              


Q ss_pred             ------------------HhCCeEEEEcCCCCcCHHHHHHHHHHH
Q 041042          221 ------------------ALNATLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       221 ------------------~~~~~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                                        ...+.|.++|++++ +++++-+|+.+.
T Consensus       194 ~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  194 KDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             ccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence                              12245888999999 899999998765

>PRK12740 elongation factor G; Reviewed

Probab=99.35  E-value=1.5e-11  Score=118.43  Aligned_cols=107  Identities=18%  Similarity=0.143  Sum_probs=72.1

Q ss_pred             EcCCCChHHHHHHHHhcCCC--------CCC-----C-----CCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchh
Q 041042           89 LGDCHIGKTSFLEKYVGDEK--------EQG-----G-----SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLP  150 (268)
Q Consensus        89 lG~~~vGKSsLi~~l~~~~~--------~~~-----~-----~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~  150 (268)
                      +|..++|||||+++|+...-        ...     +     ...+........+..  ..+.+++|||+|+..|.....
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~--~~~~i~liDtPG~~~~~~~~~   78 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEW--KGHKINLIDTPGHVDFTGEVE   78 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEE--CCEEEEEEECCCcHHHHHHHH
Confidence            69999999999999954311        000     0     011111222223333  346789999999998877788


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          151 VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      .+++.+|++++|+|+++.........|. .+..  .+.|.++|+||+|+.
T Consensus        79 ~~l~~aD~vllvvd~~~~~~~~~~~~~~-~~~~--~~~p~iiv~NK~D~~  125 (668)
T PRK12740         79 RALRVLDGAVVVVCAVGGVEPQTETVWR-QAEK--YGVPRIIFVNKMDRA  125 (668)
T ss_pred             HHHHHhCeEEEEEeCCCCcCHHHHHHHH-HHHH--cCCCEEEEEECCCCC
Confidence            8899999999999998877666544443 3332  245668999999974

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.33  E-value=1.6e-11  Score=110.75  Aligned_cols=160  Identities=12%  Similarity=0.090  Sum_probs=107.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEE-CCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV-RGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      .-=|.|+|.-.-|||||+..|-+..........+........+.. +|  -.+.|.||||+..|..|+..-..-+|++++
T Consensus       153 pPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p~G--~~iTFLDTPGHaAF~aMRaRGA~vtDIvVL  230 (683)
T KOG1145|consen  153 PPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLPSG--KSITFLDTPGHAAFSAMRARGANVTDIVVL  230 (683)
T ss_pred             CCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecCCC--CEEEEecCCcHHHHHHHHhccCccccEEEE
Confidence            346889999999999999999887765544443322222333444 44  457789999999999999988888999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh-CCCCceEEEEeCCCCCCCCCccchhchHHHHHH---HHHHhC--CeEEEEcCCCCc
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKC-NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARA---YAKALN--ATLFFSSATYNI  235 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~---~~~~~~--~~~~~~Sa~~~~  235 (268)
                      |+.+.|.--    ....+.|... ..+.|+||..||+|.+    +.....+..++..   ..+.+|  ++.+++||++|.
T Consensus       231 VVAadDGVm----pQT~EaIkhAk~A~VpiVvAinKiDkp----~a~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~  302 (683)
T KOG1145|consen  231 VVAADDGVM----PQTLEAIKHAKSANVPIVVAINKIDKP----GANPEKVKRELLSQGIVVEDLGGDVQVIPISALTGE  302 (683)
T ss_pred             EEEccCCcc----HhHHHHHHHHHhcCCCEEEEEeccCCC----CCCHHHHHHHHHHcCccHHHcCCceeEEEeecccCC
Confidence            998877321    1223333333 2355667999999953    3222222222221   134444  578999999999


Q ss_pred             CHHHHHHHHHHHHhcCc
Q 041042          236 NVNKILKFITAKLFDIP  252 (268)
Q Consensus       236 ~i~~~f~~l~~~i~~~~  252 (268)
                      |++.+-+.+.-...-+.
T Consensus       303 nl~~L~eaill~Ae~md  319 (683)
T KOG1145|consen  303 NLDLLEEAILLLAEVMD  319 (683)
T ss_pred             ChHHHHHHHHHHHHHhh
Confidence            99999999876554443

>PRK12739 elongation factor G; Reviewed

Probab=99.33  E-value=2.2e-11  Score=117.44  Aligned_cols=114  Identities=18%  Similarity=0.182  Sum_probs=76.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCC--C------CC-----C-----CCCCcceeeEEEEEEECCeEEEEEEEeCCCcc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDE--K------EQ-----G-----GSPGEGLNMMDKTLLVRGARISYSIWEVTGDA  143 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~--~------~~-----~-----~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~  143 (268)
                      ...+|+|+|..++|||||+++|+...  .      ..     +     ....+..+.....+..++  .+++++||+|+.
T Consensus         7 ~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG~~   84 (691)
T PRK12739          7 KTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKG--HRINIIDTPGHV   84 (691)
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECC--EEEEEEcCCCHH
Confidence            35789999999999999999997421  0      00     0     011122222223334443  568899999999


Q ss_pred             ccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       144 ~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      .|.......++.+|++|+|+|+++...-+.. ..+..+...  +.|.|++.||+|+.
T Consensus        85 ~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~~~--~~p~iv~iNK~D~~  138 (691)
T PRK12739         85 DFTIEVERSLRVLDGAVAVFDAVSGVEPQSE-TVWRQADKY--GVPRIVFVNKMDRI  138 (691)
T ss_pred             HHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHHHc--CCCEEEEEECCCCC
Confidence            8888888889999999999999876443332 223333332  45668999999975

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.32  E-value=1.8e-11  Score=102.31  Aligned_cols=169  Identities=13%  Similarity=0.161  Sum_probs=105.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEE-EEEECCeEEEEEEEeCCCccc-------cccchhhh
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDK-TLLVRGARISYSIWEVTGDAK-------AQDHLPVA  152 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~~l~i~Dt~G~~~-------~~~~~~~~  152 (268)
                      ...++|+++|..|+|||||+|++..+...+-..-..|.+.... ...+++  -.+.+||++|-++       ++.....+
T Consensus        37 ~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~--~~l~lwDtPG~gdg~~~D~~~r~~~~d~  114 (296)
T COG3596          37 KEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDG--ENLVLWDTPGLGDGKDKDAEHRQLYRDY  114 (296)
T ss_pred             cCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccc--cceEEecCCCcccchhhhHHHHHHHHHH
Confidence            3458999999999999999999986543322211112222111 123445  3488999999655       55667778


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCC---------CCccch-hchHHHHHHHHHHh
Q 041042          153 CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQ---------LPIDLQ-WTIASQARAYAKAL  222 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~---------~~~~~~-~~~~~~~~~~~~~~  222 (268)
                      +...|.++++.|..|+.-=-+ .+++..+....-+.+.+++.|.+|....         .+.... .-+.+.+..+.+..
T Consensus       115 l~~~DLvL~l~~~~draL~~d-~~f~~dVi~~~~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~~~~  193 (296)
T COG3596         115 LPKLDLVLWLIKADDRALGTD-EDFLRDVIILGLDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALGRLF  193 (296)
T ss_pred             hhhccEEEEeccCCCccccCC-HHHHHHHHHhccCceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHH
Confidence            889999999999987652111 2334455554445667899999996422         111111 11122222222222


Q ss_pred             --CCeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          223 --NATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       223 --~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                        -.+.+..|...+.|++++...++..+....
T Consensus       194 q~V~pV~~~~~r~~wgl~~l~~ali~~lp~e~  225 (296)
T COG3596         194 QEVKPVVAVSGRLPWGLKELVRALITALPVEA  225 (296)
T ss_pred             hhcCCeEEeccccCccHHHHHHHHHHhCcccc
Confidence              246777888999999999999998776443

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.31  E-value=1.3e-11  Score=119.29  Aligned_cols=116  Identities=11%  Similarity=0.125  Sum_probs=80.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcC---------------CCCCC---CCCCcceeeEEEEEEECCeEEEEEEEeCCCcc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGD---------------EKEQG---GSPGEGLNMMDKTLLVRGARISYSIWEVTGDA  143 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~---------------~~~~~---~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~  143 (268)
                      ...+|+++|..++|||||+.+|+..               .+...   ...|+...........++..+.+++|||+|+.
T Consensus        18 ~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~   97 (720)
T TIGR00490        18 FIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGHV   97 (720)
T ss_pred             cccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCcc
Confidence            3579999999999999999999742               11111   11244333333334466778899999999999


Q ss_pred             ccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       144 ~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      +|.......++.+|++|+|+|+.+.-..+....|.. +..  .+.++|+++||+|..
T Consensus        98 ~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~-~~~--~~~p~ivviNKiD~~  151 (720)
T TIGR00490        98 DFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQ-ALK--ENVKPVLFINKVDRL  151 (720)
T ss_pred             ccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHH-HHH--cCCCEEEEEEChhcc
Confidence            998888889999999999999877433222222322 221  244668999999963

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=99.30  E-value=3.9e-11  Score=98.44  Aligned_cols=104  Identities=11%  Similarity=0.098  Sum_probs=62.5

Q ss_pred             EEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchH
Q 041042          133 SYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIA  212 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~  212 (268)
                      ...+.++.|..--.... .  .-++.+|.|+|+++.++...  .+..++     ...-++++||+|+..... .......
T Consensus        93 D~iiIEt~G~~l~~~~~-~--~l~~~~i~vvD~~~~~~~~~--~~~~qi-----~~ad~~~~~k~d~~~~~~-~~~~~~~  161 (199)
T TIGR00101        93 EMVFIESGGDNLSATFS-P--ELADLTIFVIDVAAGDKIPR--KGGPGI-----TRSDLLVINKIDLAPMVG-ADLGVME  161 (199)
T ss_pred             CEEEEECCCCCcccccc-h--hhhCcEEEEEEcchhhhhhh--hhHhHh-----hhccEEEEEhhhcccccc-ccHHHHH
Confidence            34567777732111111 1  12688999999987666321  111222     112379999999732111 1122223


Q ss_pred             HHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          213 SQARAYAKALNATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       213 ~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      ++++.+  ..+.+++++||++|+|++++|+++.+.++
T Consensus       162 ~~~~~~--~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       162 RDAKKM--RGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             HHHHHh--CCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            444443  34689999999999999999999987654

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.

>PRK13768 GTPase; Provisional

Probab=99.30  E-value=2.2e-11  Score=103.62  Aligned_cols=115  Identities=10%  Similarity=0.047  Sum_probs=71.7

Q ss_pred             EEEEEeCCCcccc---ccchhhhhcC-----CcEEEEEEeCCChhhHHHHH--HHHHHHHHhCCCCceEEEEeCCCCCCC
Q 041042          133 SYSIWEVTGDAKA---QDHLPVACKD-----SIAILFMFDLTSRCTLKSVI--RWYQQARKCNQTAIPIIIGTKFDDFIQ  202 (268)
Q Consensus       133 ~l~i~Dt~G~~~~---~~~~~~~~~~-----a~~vilv~D~~~~~s~~~~~--~~~~~i~~~~~~~~~ilvgnK~Dl~~~  202 (268)
                      .+.+||++|+.++   +..+..+++.     ++++++|+|++...+..+..  .|+........+.++|+|.||+|+.  
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~--  175 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLL--  175 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhc--
Confidence            5789999998764   3333333332     89999999996544333322  3333333223466778999999973  


Q ss_pred             CCccchhchHHHHH------------------------HHHHHhC--CeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          203 LPIDLQWTIASQAR------------------------AYAKALN--ATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       203 ~~~~~~~~~~~~~~------------------------~~~~~~~--~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                       .............                        +..+..+  .+++++||+++.|+++++++|.+.+..
T Consensus       176 -~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~~  248 (253)
T PRK13768        176 -SEEELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFCG  248 (253)
T ss_pred             -CchhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcCC
Confidence             2222211111111                        1223334  578999999999999999999887654

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.28  E-value=3.7e-11  Score=105.59  Aligned_cols=159  Identities=12%  Similarity=0.086  Sum_probs=102.4

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC--CCC------------------------C---CCCCcceeeEEEEEEECCeE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE--KEQ------------------------G---GSPGEGLNMMDKTLLVRGAR  131 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~--~~~------------------------~---~~~t~~~~~~~~~~~~~~~~  131 (268)
                      ...++++++|...+|||||+-+|+.+-  +..                        +   ....-|.++......+....
T Consensus         5 Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k   84 (428)
T COG5256           5 KPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDK   84 (428)
T ss_pred             CCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCC
Confidence            346899999999999999999986421  110                        0   00012444444444555666


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh---hHHHHH--HHHHHHHHhCCCCceEEEEeCCCCCCCCCcc
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC---TLKSVI--RWYQQARKCNQTAIPIIIGTKFDDFIQLPID  206 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~---s~~~~~--~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~  206 (268)
                      ..+.|.|++|+..|-.-.-.-...||+.|||+|+.+.+   .|.--.  +-...+.+...-.-.||+.||.|+.. .+++
T Consensus        85 ~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi~~lIVavNKMD~v~-wde~  163 (428)
T COG5256          85 YNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLVS-WDEE  163 (428)
T ss_pred             ceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcCCceEEEEEEcccccc-cCHH
Confidence            78999999998887554445567899999999998764   221111  11112222222333478999999843 2333


Q ss_pred             chhchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHHH
Q 041042          207 LQWTIASQARAYAKALN-----ATLFFSSATYNINVNKI  240 (268)
Q Consensus       207 ~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~~  240 (268)
                      +-..+..++..+.+..|     ++|+.+|+..|+|+.+.
T Consensus       164 rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         164 RFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             HHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            33344667777777776     45899999999998654

>PRK00007 elongation factor G; Reviewed

Probab=99.28  E-value=7.2e-11  Score=113.86  Aligned_cols=114  Identities=17%  Similarity=0.154  Sum_probs=75.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhc--CCCC-----C------C-----CCCCcceeeEEEEEEECCeEEEEEEEeCCCcc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVG--DEKE-----Q------G-----GSPGEGLNMMDKTLLVRGARISYSIWEVTGDA  143 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~--~~~~-----~------~-----~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~  143 (268)
                      ...+|+|+|..++|||||+++|+.  +...     .      +     ....+..+.....+...  ..++++.||+|+.
T Consensus         9 ~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~--~~~~~liDTPG~~   86 (693)
T PRK00007          9 RYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWK--DHRINIIDTPGHV   86 (693)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEEC--CeEEEEEeCCCcH
Confidence            346999999999999999999973  1110     0      0     01112222222233333  4568899999998


Q ss_pred             ccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       144 ~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      .|.......++.+|++|+|+|+...-.-+...-|. .+.+.  +.|.|++.||+|+.
T Consensus        87 ~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~-~~~~~--~~p~iv~vNK~D~~  140 (693)
T PRK00007         87 DFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWR-QADKY--KVPRIAFVNKMDRT  140 (693)
T ss_pred             HHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHH-HHHHc--CCCEEEEEECCCCC
Confidence            88766777788999999999987654444433333 23332  34568999999974

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=99.27  E-value=1.2e-11  Score=111.41  Aligned_cols=167  Identities=22%  Similarity=0.397  Sum_probs=129.1

Q ss_pred             CCCCCCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhc
Q 041042           75 HLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACK  154 (268)
Q Consensus        75 ~~~~~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~  154 (268)
                      +.-+....++|+-|+|..++|||+|+++|+.+.|.....+ .|..| .+++.++++...+.+.|.+|...     .+|..
T Consensus        22 wtlsrsipelk~givg~~~sgktalvhr~ltgty~~~e~~-e~~~~-kkE~vv~gqs~lLlirdeg~~~~-----aQft~   94 (749)
T KOG0705|consen   22 WTLSRSIPELKLGIVGTSQSGKTALVHRYLTGTYTQDESP-EGGRF-KKEVVVDGQSHLLLIRDEGGHPD-----AQFCQ   94 (749)
T ss_pred             eeeecccchhheeeeecccCCceeeeeeeccceeccccCC-cCccc-eeeEEeeccceEeeeecccCCch-----hhhhh
Confidence            3344566789999999999999999999999999776666 34444 47778899999999999998433     56788


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhC-CCCce-EEEEeCCCCCCCCCccchhch-HHHHHHH-HHHhCCeEEEEc
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIP-IIIGTKFDDFIQLPIDLQWTI-ASQARAY-AKALNATLFFSS  230 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~-~~~~~-ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~S  230 (268)
                      ++|++|+||.+.+..+|+.+......+..+. ...++ +++|++.-    .+....+++ ...+.++ ++...+.||+++
T Consensus        95 wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~----iS~~~~rv~~da~~r~l~~~~krcsy~et~  170 (749)
T KOG0705|consen   95 WVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDH----ISAKRPRVITDDRARQLSAQMKRCSYYETC  170 (749)
T ss_pred             hccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcch----hhcccccccchHHHHHHHHhcCccceeecc
Confidence            9999999999999999999988777765543 23344 68888765    333333333 4444444 455579999999


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCc
Q 041042          231 ATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      |.+|.++..+|+.+..++....
T Consensus       171 atyGlnv~rvf~~~~~k~i~~~  192 (749)
T KOG0705|consen  171 ATYGLNVERVFQEVAQKIVQLR  192 (749)
T ss_pred             hhhhhhHHHHHHHHHHHHHHHH
Confidence            9999999999999998877663

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.27  E-value=4.9e-12  Score=102.76  Aligned_cols=170  Identities=16%  Similarity=0.195  Sum_probs=108.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc-----ccchhhhhcCC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA-----QDHLPVACKDS  156 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~-----~~~~~~~~~~a  156 (268)
                      .-||+++|.+|+||||+-..+..+... +...++-..|+.-..+.+- ....+++||.+||+.+     .......+++.
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~Rfl-Gnl~LnlwDcGgqe~fmen~~~~q~d~iF~nV   82 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFL-GNLVLNLWDCGGQEEFMENYLSSQEDNIFRNV   82 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhh-hhheeehhccCCcHHHHHHHHhhcchhhheeh
Confidence            359999999999999987665543211 1111211122222222222 2356899999999854     23456678999


Q ss_pred             cEEEEEEeCCChhh---HHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchH----HHHHHHHHHhCCeEEEE
Q 041042          157 IAILFMFDLTSRCT---LKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIA----SQARAYAKALNATLFFS  229 (268)
Q Consensus       157 ~~vilv~D~~~~~s---~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~  229 (268)
                      +++|+|||+...+-   |...++-++.+.++.|...+.+..+|.||   +..+.+..+.    +....+.+..++.++.+
T Consensus        83 ~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP~AkiF~l~hKmDL---v~~d~r~~if~~r~~~l~~~s~~~~~~~f~T  159 (295)
T KOG3886|consen   83 QVLIYVFDVESREMEKDFHYYQKCLEALLQNSPEAKIFCLLHKMDL---VQEDARELIFQRRKEDLRRLSRPLECKCFPT  159 (295)
T ss_pred             eeeeeeeeccchhhhhhHHHHHHHHHHHHhcCCcceEEEEEeechh---cccchHHHHHHHHHHHHHHhccccccccccc
Confidence            99999999988764   33444556667777777777899999998   6666555553    33444455556778887


Q ss_pred             cCCCCcCHHHHHHHHHHHHhcCccchhc
Q 041042          230 SATYNINVNKILKFITAKLFDIPWTLER  257 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i~~~~~~~~~  257 (268)
                      |.- .+++-..+..+...++......+.
T Consensus       160 siw-Detl~KAWS~iv~~lipn~~~~e~  186 (295)
T KOG3886|consen  160 SIW-DETLYKAWSSIVYNLIPNVSALES  186 (295)
T ss_pred             chh-hHHHHHHHHHHHHhhCCChHHHHH
Confidence            754 344555566666666665544443

>PRK09866 hypothetical protein; Provisional

Probab=99.26  E-value=2.3e-10  Score=106.30  Aligned_cols=108  Identities=18%  Similarity=0.157  Sum_probs=69.7

Q ss_pred             EEEEEeCCCcccc-----ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc
Q 041042          133 SYSIWEVTGDAKA-----QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL  207 (268)
Q Consensus       133 ~l~i~Dt~G~~~~-----~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~  207 (268)
                      .+.|.||||....     .......+.++|+|++|+|.++.-+..+ ....+.+.+.+...|.++|.||+|+.   ... 
T Consensus       231 QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~~K~~PVILVVNKIDl~---dre-  305 (741)
T PRK09866        231 QLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAVGQSVPLYVLVNKFDQQ---DRN-  305 (741)
T ss_pred             CEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhcCCCCCEEEEEEcccCC---Ccc-
Confidence            4678999996542     2223446899999999999987544433 22344444443334668999999962   111 


Q ss_pred             hhchHHHHHHHHH----HhC---CeEEEEcCCCCcCHHHHHHHHHH
Q 041042          208 QWTIASQARAYAK----ALN---ATLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       208 ~~~~~~~~~~~~~----~~~---~~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                       ....+.+..+.+    ..+   ..+|.+||++|.|++++++.|.+
T Consensus       306 -eddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        306 -SDDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             -cchHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence             111333333322    222   35899999999999999999876

>cd00066 G-alpha G protein alpha subunit

Probab=99.26  E-value=1.6e-10  Score=101.49  Aligned_cols=123  Identities=14%  Similarity=0.208  Sum_probs=82.3

Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHHHhC--CCCceEEEEeCC
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSR----------CTLKSVIRWYQQARKCN--QTAIPIIIGTKF  197 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~----------~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~  197 (268)
                      ..+.+.+||++|+...+..|.+|+.+++++|+|+|+++.          ..+.+....++.+-...  .+.|++|++||.
T Consensus       159 ~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~  238 (317)
T cd00066         159 KNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKK  238 (317)
T ss_pred             cceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccCh
Confidence            346788999999999999999999999999999999874          33444444444443321  355668999999


Q ss_pred             CCCC-C---------CCccch-hchHHHHHHHHHH----------hCCeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          198 DDFI-Q---------LPIDLQ-WTIASQARAYAKA----------LNATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       198 Dl~~-~---------~~~~~~-~~~~~~~~~~~~~----------~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      |+.. +         .++-.. ....+.+..+...          ..+-.+.++|..-.++..+|+.+.+.++...
T Consensus       239 D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~~  314 (317)
T cd00066         239 DLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQNN  314 (317)
T ss_pred             HHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHHH
Confidence            9642 1         111111 1123333333221          1233456899999999999999988877653

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.24  E-value=3.6e-11  Score=88.54  Aligned_cols=136  Identities=17%  Similarity=0.188  Sum_probs=91.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc----cccchhhhhcCCcEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK----AQDHLPVACKDSIAIL  160 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~----~~~~~~~~~~~a~~vi  160 (268)
                      |++++|..|+|||||.+.+.++..  .+..|..+.|..+           -.+||+|.--    +..-.-....++|+++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~--lykKTQAve~~d~-----------~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~   69 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDT--LYKKTQAVEFNDK-----------GDIDTPGEYFEHPRWYHALITTLQDADVII   69 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchh--hhcccceeeccCc-----------cccCCchhhhhhhHHHHHHHHHhhccceee
Confidence            799999999999999999988753  3444444443221           1478988322    1111223357899999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEcCCCCcCHHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSSATYNINVNK  239 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i~~  239 (268)
                      +|-.+++++|.-.     ..+... ...+.|-|.+|.||    .+   ....+..+.|..+-|. ++|++|+.++.|+++
T Consensus        70 ~v~~and~~s~f~-----p~f~~~-~~k~vIgvVTK~DL----ae---d~dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~  136 (148)
T COG4917          70 YVHAANDPESRFP-----PGFLDI-GVKKVIGVVTKADL----AE---DADISLVKRWLREAGAEPIFETSAVDNQGVEE  136 (148)
T ss_pred             eeecccCccccCC-----cccccc-cccceEEEEecccc----cc---hHhHHHHHHHHHHcCCcceEEEeccCcccHHH
Confidence            9999998875211     001111 13346788999997    22   2224556777777776 588899999999999


Q ss_pred             HHHHHHH
Q 041042          240 ILKFITA  246 (268)
Q Consensus       240 ~f~~l~~  246 (268)
                      +++.|..
T Consensus       137 l~~~L~~  143 (148)
T COG4917         137 LVDYLAS  143 (148)
T ss_pred             HHHHHHh
Confidence            9999864

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.23  E-value=2.4e-10  Score=101.50  Aligned_cols=163  Identities=13%  Similarity=0.149  Sum_probs=116.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC--CCCC------------CCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccch
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE--KEQG------------GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHL  149 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~--~~~~------------~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~  149 (268)
                      -+|+|+-.-.-|||||+..++...  |...            ....-|.+...|...++.+.++++|.||+|+..|....
T Consensus         6 RNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGEV   85 (603)
T COG1217           6 RNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGEV   85 (603)
T ss_pred             ceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccchh
Confidence            468899999999999999997642  3221            11223666666665666666889999999999999999


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-------h
Q 041042          150 PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-------L  222 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-------~  222 (268)
                      ...+.-.|++++++|+.+.. .-..+..+....  ...-.||||.||+|.    +..+...+.+++..+.-.       +
T Consensus        86 ERvl~MVDgvlLlVDA~EGp-MPQTrFVlkKAl--~~gL~PIVVvNKiDr----p~Arp~~Vvd~vfDLf~~L~A~deQL  158 (603)
T COG1217          86 ERVLSMVDGVLLLVDASEGP-MPQTRFVLKKAL--ALGLKPIVVINKIDR----PDARPDEVVDEVFDLFVELGATDEQL  158 (603)
T ss_pred             hhhhhhcceEEEEEEcccCC-CCchhhhHHHHH--HcCCCcEEEEeCCCC----CCCCHHHHHHHHHHHHHHhCCChhhC
Confidence            99999999999999997632 111111222222  236678999999994    555555555666666544       4


Q ss_pred             CCeEEEEcCCCC----------cCHHHHHHHHHHHHhcCcc
Q 041042          223 NATLFFSSATYN----------INVNKILKFITAKLFDIPW  253 (268)
Q Consensus       223 ~~~~~~~Sa~~~----------~~i~~~f~~l~~~i~~~~~  253 (268)
                      .++++..|+++|          .++..+|+.|++.+....-
T Consensus       159 dFPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P~~  199 (603)
T COG1217         159 DFPIVYASARNGTASLDPEDEADDMAPLFETILDHVPAPKG  199 (603)
T ss_pred             CCcEEEeeccCceeccCccccccchhHHHHHHHHhCCCCCC
Confidence            468899999876          4688999999998877653

>PTZ00258 GTP-binding protein; Provisional

Probab=99.17  E-value=9.4e-10  Score=98.30  Aligned_cols=85  Identities=13%  Similarity=0.112  Sum_probs=56.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCe---------------EEEEEEEeCCCcccc-
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGA---------------RISYSIWEVTGDAKA-  145 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~l~i~Dt~G~~~~-  145 (268)
                      ..+||.|+|.||||||||+|++.+........|..+.+.....+.+.+.               ...+++.||||-..- 
T Consensus        20 ~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga   99 (390)
T PTZ00258         20 NNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGA   99 (390)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCC
Confidence            3479999999999999999999887654444443333333333443322               234899999995432 


Q ss_pred             ---ccchhhh---hcCCcEEEEEEeCC
Q 041042          146 ---QDHLPVA---CKDSIAILFMFDLT  166 (268)
Q Consensus       146 ---~~~~~~~---~~~a~~vilv~D~~  166 (268)
                         ..+...+   ++.+|++++|+|..
T Consensus       100 ~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258        100 SEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             cchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence               1232333   57899999999973

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.13  E-value=9.5e-10  Score=94.91  Aligned_cols=116  Identities=16%  Similarity=0.167  Sum_probs=68.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCC--CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc-------hh
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEK--EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH-------LP  150 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-------~~  150 (268)
                      +...++|+++|.+||||||++|++++...  .....+ .+..........+|  .++.+|||+|.......       ..
T Consensus        35 ~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s-~t~~~~~~~~~~~G--~~l~VIDTPGL~d~~~~~e~~~~~ik  111 (313)
T TIGR00991        35 DVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQS-EGLRPMMVSRTRAG--FTLNIIDTPGLIEGGYINDQAVNIIK  111 (313)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCC-cceeEEEEEEEECC--eEEEEEECCCCCchHHHHHHHHHHHH
Confidence            45579999999999999999999998763  122222 22221112223344  56889999997653221       12


Q ss_pred             hhh--cCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhCC---CCceEEEEeCCCC
Q 041042          151 VAC--KDSIAILFMFDLTSRCTLKSV-IRWYQQARKCNQ---TAIPIIIGTKFDD  199 (268)
Q Consensus       151 ~~~--~~a~~vilv~D~~~~~s~~~~-~~~~~~i~~~~~---~~~~ilvgnK~Dl  199 (268)
                      .|+  ...|++++|..++.. .+... ...++.+....+   -...|||.|+.|.
T Consensus       112 ~~l~~~g~DvVLyV~rLD~~-R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~  165 (313)
T TIGR00991       112 RFLLGKTIDVLLYVDRLDAY-RVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQF  165 (313)
T ss_pred             HHhhcCCCCEEEEEeccCcc-cCCHHHHHHHHHHHHHhhhhhhccEEEEEECCcc
Confidence            222  268999999655422 12211 223344433321   1335899999996

>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=99.12  E-value=9e-10  Score=91.35  Aligned_cols=162  Identities=17%  Similarity=0.179  Sum_probs=92.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC-CCCCC-CCcceeeEEEEEEECCeEEEEEEEeCCCccccc--------cch---h
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK-EQGGS-PGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ--------DHL---P  150 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~-~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~--------~~~---~  150 (268)
                      ++|+|+|..|+||||++|.+++... ..... .............++|..  +.++||||-..-.        .+.   .
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g~~--v~VIDTPGl~d~~~~~~~~~~~i~~~l~   78 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDGRQ--VTVIDTPGLFDSDGSDEEIIREIKRCLS   78 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETTEE--EEEEE--SSEETTEEHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecceE--EEEEeCCCCCCCcccHHHHHHHHHHHHH
Confidence            5899999999999999999998864 33211 112222333444667755  6789999942211        111   1


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh-CCC--CceEEEEeCCCCCCCCCccc-hhch----HHHHHHHHHHh
Q 041042          151 VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKC-NQT--AIPIIIGTKFDDFIQLPIDL-QWTI----ASQARAYAKAL  222 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~-~~~--~~~ilvgnK~Dl~~~~~~~~-~~~~----~~~~~~~~~~~  222 (268)
                      ....+.|++|+|+..+ +-+-.+.. .++.+... .+.  .-.|||.|..|.   +.+.. ....    ....+++.+..
T Consensus        79 ~~~~g~ha~llVi~~~-r~t~~~~~-~l~~l~~~FG~~~~k~~ivvfT~~d~---~~~~~~~~~l~~~~~~~l~~li~~c  153 (212)
T PF04548_consen   79 LCSPGPHAFLLVIPLG-RFTEEDRE-VLELLQEIFGEEIWKHTIVVFTHADE---LEDDSLEDYLKKESNEALQELIEKC  153 (212)
T ss_dssp             HTTT-ESEEEEEEETT-B-SHHHHH-HHHHHHHHHCGGGGGGEEEEEEEGGG---GTTTTHHHHHHHHHHHHHHHHHHHT
T ss_pred             hccCCCeEEEEEEecC-cchHHHHH-HHHHHHHHccHHHHhHhhHHhhhccc---cccccHHHHHhccCchhHhHHhhhc
Confidence            2245789999999987 33322222 22233322 222  223677888874   22221 1111    23467788888


Q ss_pred             CCeEEEEcCC------CCcCHHHHHHHHHHHHhcCc
Q 041042          223 NATLFFSSAT------YNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       223 ~~~~~~~Sa~------~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +-.|+..+.+      ....+.++++.+-+.+.++.
T Consensus       154 ~~R~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~  189 (212)
T PF04548_consen  154 GGRYHVFNNKTKDKEKDESQVSELLEKIEEMVQENG  189 (212)
T ss_dssp             TTCEEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CCEEEEEeccccchhhhHHHHHHHHHHHHHHHHHcC
Confidence            8888887766      33457888888777766664

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 ....

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.12  E-value=1.4e-09  Score=89.88  Aligned_cols=151  Identities=14%  Similarity=0.119  Sum_probs=80.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCC--------CCCCCCccee----eEEEEEEE-CC-------------------e
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKE--------QGGSPGEGLN----MMDKTLLV-RG-------------------A  130 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~--------~~~~~t~~~~----~~~~~~~~-~~-------------------~  130 (268)
                      ...|.++|..|+|||||++++...-..        ......+...    .....+.+ +|                   .
T Consensus        22 ~~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~~~~~l~~gcic~~~~~~~~~~l~~~~~~  101 (207)
T TIGR00073        22 LVVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGAPAIQINTGKECHLDAHMVAHALEDLPLD  101 (207)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCCcEEEEcCCCcccCChHHHHHHHHHhccC
Confidence            467889999999999999998753100        0000000000    00001111 11                   1


Q ss_pred             EEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhc
Q 041042          131 RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWT  210 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~  210 (268)
                      ...+.+.+|.|.-..   ...+....+..+.|+|+++.+....  .....+     ..+.++++||+|+.   ...  ..
T Consensus       102 ~~d~IiIEt~G~l~~---~~~~~~~~~~~i~Vvd~~~~d~~~~--~~~~~~-----~~a~iiv~NK~Dl~---~~~--~~  166 (207)
T TIGR00073       102 DIDLLFIENVGNLVC---PADFDLGEHMRVVLLSVTEGDDKPL--KYPGMF-----KEADLIVINKADLA---EAV--GF  166 (207)
T ss_pred             CCCEEEEecCCCcCC---CcccccccCeEEEEEecCcccchhh--hhHhHH-----hhCCEEEEEHHHcc---ccc--hh
Confidence            234556777662100   0111123455667888775543111  101111     23458999999972   211  11


Q ss_pred             hHHHHHHHHHHh--CCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          211 IASQARAYAKAL--NATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       211 ~~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      ..++..+..++.  ..+++++||++|.|++++|+++.+..
T Consensus       167 ~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~~  206 (207)
T TIGR00073       167 DVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQV  206 (207)
T ss_pred             hHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            122333333333  38899999999999999999998753

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.11  E-value=2.3e-09  Score=94.76  Aligned_cols=83  Identities=16%  Similarity=0.163  Sum_probs=55.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeE---------------EEEEEEeCCCcccc---
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGAR---------------ISYSIWEVTGDAKA---  145 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~---  145 (268)
                      ++|.++|.||||||||+|++++........|..+.+.....+.+.+..               ..+++.|+||...-   
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~   82 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   82 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCCh
Confidence            799999999999999999999877433333322323333334443321               35899999995431   


Q ss_pred             -ccchhhh---hcCCcEEEEEEeCC
Q 041042          146 -QDHLPVA---CKDSIAILFMFDLT  166 (268)
Q Consensus       146 -~~~~~~~---~~~a~~vilv~D~~  166 (268)
                       ..+...+   ++.+|++++|+|+.
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence             1233333   57899999999984

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.11  E-value=4.9e-09  Score=88.83  Aligned_cols=116  Identities=16%  Similarity=0.170  Sum_probs=68.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCC--CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc--c-c------
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQ--GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ--D-H------  148 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~--~-~------  148 (268)
                      ....++|+|+|.+|||||||+|.+.+.....  ...++ ...........++  ..+.+|||+|-....  . .      
T Consensus        28 ~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~-T~~~~~~~~~~~g--~~i~vIDTPGl~~~~~~~~~~~~~~~  104 (249)
T cd01853          28 LDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSE-TLRVREVSGTVDG--FKLNIIDTPGLLESVMDQRVNRKILS  104 (249)
T ss_pred             ccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCc-eEEEEEEEEEECC--eEEEEEECCCcCcchhhHHHHHHHHH
Confidence            4456999999999999999999999976422  22221 1122222333444  457899999965431  1 1      


Q ss_pred             -hhhhhc--CCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhCCC---CceEEEEeCCCC
Q 041042          149 -LPVACK--DSIAILFMFDLTSR-CTLKSVIRWYQQARKCNQT---AIPIIIGTKFDD  199 (268)
Q Consensus       149 -~~~~~~--~a~~vilv~D~~~~-~s~~~~~~~~~~i~~~~~~---~~~ilvgnK~Dl  199 (268)
                       ...|+.  ..+++++|..++.. .++.+ ...++.+....+.   ...|||.||+|.
T Consensus       105 ~I~~~l~~~~idvIL~V~rlD~~r~~~~d-~~llk~I~e~fG~~i~~~~ivV~T~~d~  161 (249)
T cd01853         105 SIKRYLKKKTPDVVLYVDRLDMYRRDYLD-LPLLRAITDSFGPSIWRNAIVVLTHAAS  161 (249)
T ss_pred             HHHHHHhccCCCEEEEEEcCCCCCCCHHH-HHHHHHHHHHhChhhHhCEEEEEeCCcc
Confidence             122343  57888888655432 12222 1333344432221   245799999996

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.08  E-value=3.5e-09  Score=92.98  Aligned_cols=105  Identities=12%  Similarity=0.055  Sum_probs=65.4

Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI  211 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~  211 (268)
                      +.+.|.||+|...-..   .....||.+++|.+....+..+.+..   .+.+.    .-|+|.||+|+   .........
T Consensus       149 ~d~viieT~Gv~qs~~---~i~~~aD~vlvv~~p~~gd~iq~~k~---gi~E~----aDIiVVNKaDl---~~~~~a~~~  215 (332)
T PRK09435        149 YDVILVETVGVGQSET---AVAGMVDFFLLLQLPGAGDELQGIKK---GIMEL----ADLIVINKADG---DNKTAARRA  215 (332)
T ss_pred             CCEEEEECCCCccchh---HHHHhCCEEEEEecCCchHHHHHHHh---hhhhh----hheEEeehhcc---cchhHHHHH
Confidence            5678999999653221   14567999999977555555544332   11111    12899999997   222211122


Q ss_pred             HHHHHHHHHH-------hCCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          212 ASQARAYAKA-------LNATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       212 ~~~~~~~~~~-------~~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      ..+.......       +..+++.+||+++.||+++++.|.+...
T Consensus       216 ~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        216 AAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             HHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            2233332222       2357899999999999999999987644

>cd01882 BMS1 Bms1

Probab=99.07  E-value=3.1e-09  Score=88.94  Aligned_cols=139  Identities=17%  Similarity=0.210  Sum_probs=81.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ...|+++|.+|+|||||++.+.+..-........|. +   .+ .......+.++||+|.-  ..+. ...+.+|++++|
T Consensus        39 ~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i---~i-~~~~~~~i~~vDtPg~~--~~~l-~~ak~aDvVllv  110 (225)
T cd01882          39 PLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-I---TV-VTGKKRRLTFIECPNDI--NAMI-DIAKVADLVLLL  110 (225)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-E---EE-EecCCceEEEEeCCchH--HHHH-HHHHhcCEEEEE
Confidence            478999999999999999999765211111111121 1   11 12244567899999853  2222 335789999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccc-hhchHHHHHH-HHHH--hCCeEEEEcCCCCc
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDL-QWTIASQARA-YAKA--LNATLFFSSATYNI  235 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~-~~~~~~~~~~-~~~~--~~~~~~~~Sa~~~~  235 (268)
                      +|.+....... ...+..+...  +.|. |+|.||+|+   +.... .....+++++ +..+  .+.+++.+||++.-
T Consensus       111 iDa~~~~~~~~-~~i~~~l~~~--g~p~vi~VvnK~D~---~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~  182 (225)
T cd01882         111 IDASFGFEMET-FEFLNILQVH--GFPRVMGVLTHLDL---FKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHG  182 (225)
T ss_pred             EecCcCCCHHH-HHHHHHHHHc--CCCeEEEEEecccc---CCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCC
Confidence            99876443322 2233333332  3344 469999997   32211 1222334433 3322  25689999999874

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.

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.06  E-value=2.1e-09  Score=92.67  Aligned_cols=152  Identities=14%  Similarity=0.117  Sum_probs=95.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCC------------CCCCCCc-------------------ceeeEEEEEEECCe
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKE------------QGGSPGE-------------------GLNMMDKTLLVRGA  130 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~------------~~~~~t~-------------------~~~~~~~~~~~~~~  130 (268)
                      ..++++-+|.-.=||||||-||+.+.-.            .....|.                   |.+...--..+...
T Consensus         5 ~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT~   84 (431)
T COG2895           5 SLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFSTE   84 (431)
T ss_pred             cceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecccc
Confidence            3589999999999999999999764210            0001111                   11111111112334


Q ss_pred             EEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc--h
Q 041042          131 RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL--Q  208 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~--~  208 (268)
                      +-+|.+-||||+++|..-.-.-...||++|+++|+-.. -++..+ -...|...-.-.-+||..||+||   +..++  -
T Consensus        85 KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~G-vl~QTr-RHs~I~sLLGIrhvvvAVNKmDL---vdy~e~~F  159 (431)
T COG2895          85 KRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKG-VLEQTR-RHSFIASLLGIRHVVVAVNKMDL---VDYSEEVF  159 (431)
T ss_pred             cceEEEecCCcHHHHhhhhhcccccccEEEEEEecchh-hHHHhH-HHHHHHHHhCCcEEEEEEeeecc---cccCHHHH
Confidence            55789999999999966555556789999999998321 111111 11222222222334688999998   33332  2


Q ss_pred             hchHHHHHHHHHHhCC---eEEEEcCCCCcCHH
Q 041042          209 WTIASQARAYAKALNA---TLFFSSATYNINVN  238 (268)
Q Consensus       209 ~~~~~~~~~~~~~~~~---~~~~~Sa~~~~~i~  238 (268)
                      ..+.++-..|+.++++   .++.+||..|+||-
T Consensus       160 ~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         160 EAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             HHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            3446777888999885   58889999999974

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.03  E-value=3.5e-09  Score=102.89  Aligned_cols=115  Identities=12%  Similarity=0.164  Sum_probs=75.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCC--CCC---------CCCCC---cceeeEE----EEEEECCeEEEEEEEeCCCccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDE--KEQ---------GGSPG---EGLNMMD----KTLLVRGARISYSIWEVTGDAK  144 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~--~~~---------~~~~t---~~~~~~~----~~~~~~~~~~~l~i~Dt~G~~~  144 (268)
                      .-.|+++|..++|||||+.+++...  ...         ++.+.   -|.+...    .....++....++++||||+.+
T Consensus        20 iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~~d   99 (731)
T PRK07560         20 IRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGHVD   99 (731)
T ss_pred             ccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCccC
Confidence            4579999999999999999997532  100         00000   0111111    1112355577899999999999


Q ss_pred             cccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       145 ~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      |.......++.+|++|+|+|+...-.-+....|.. +.+.  +.++|++.||+|+.
T Consensus       100 f~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~-~~~~--~~~~iv~iNK~D~~  152 (731)
T PRK07560        100 FGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQ-ALRE--RVKPVLFINKVDRL  152 (731)
T ss_pred             hHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHH-HHHc--CCCeEEEEECchhh
Confidence            98888888999999999999876543333333333 2222  34568999999963

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.00  E-value=6e-09  Score=89.82  Aligned_cols=141  Identities=16%  Similarity=0.185  Sum_probs=82.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCC----------CCCcceeeEEEEEEECCeEEEEEEEeCCCcccc-------
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGG----------SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA-------  145 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~----------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~-------  145 (268)
                      .++|+|+|.+|+|||||+|.|++.......          ..+.........+.-++..+.|.++||+|-...       
T Consensus         4 ~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~~   83 (281)
T PF00735_consen    4 NFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDCW   83 (281)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhhh
Confidence            589999999999999999999987543321          122233333334455788899999999992211       


Q ss_pred             ccc-------hhhhh-------------cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCc
Q 041042          146 QDH-------LPVAC-------------KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPI  205 (268)
Q Consensus       146 ~~~-------~~~~~-------------~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~  205 (268)
                      ..+       ...|+             ...|++|++.+.+... +..+.  ++.+++......+|-|..|+|.   +..
T Consensus        84 ~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~-L~~~D--i~~mk~Ls~~vNvIPvIaKaD~---lt~  157 (281)
T PF00735_consen   84 EPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHG-LKPLD--IEFMKRLSKRVNVIPVIAKADT---LTP  157 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSS-S-HHH--HHHHHHHTTTSEEEEEESTGGG---S-H
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCcc-chHHH--HHHHHHhcccccEEeEEecccc---cCH
Confidence            000       00111             2468999999976421 22111  3445555556666789999997   555


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEE
Q 041042          206 DLQWTIASQARAYAKALNATLFFS  229 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~  229 (268)
                      ++....++.+.+-.+.+++.+|.-
T Consensus       158 ~el~~~k~~i~~~l~~~~I~~f~f  181 (281)
T PF00735_consen  158 EELQAFKQRIREDLEENNIKIFDF  181 (281)
T ss_dssp             HHHHHHHHHHHHHHHHTT--S---
T ss_pred             HHHHHHHHHHHHHHHHcCceeecc
Confidence            555555777777788888887663

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.

>cd01855 YqeH YqeH

Probab=99.00  E-value=1.6e-09  Score=88.27  Aligned_cols=94  Identities=16%  Similarity=0.182  Sum_probs=64.5

Q ss_pred             cccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHH-----
Q 041042          145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA-----  219 (268)
Q Consensus       145 ~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~-----  219 (268)
                      +..++..+++++|++++|+|+++...     .|...+.....+.++++|+||+|+   ++..   ...+....+.     
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~~~~~~~ilV~NK~Dl---~~~~---~~~~~~~~~~~~~~~   92 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLFGGNNPVILVGNKIDL---LPKD---KNLVRIKNWLRAKAA   92 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHhcCCCcEEEEEEchhc---CCCC---CCHHHHHHHHHHHHH
Confidence            57788889999999999999987542     223333222335566899999997   2221   1222333333     


Q ss_pred             HHhCC---eEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          220 KALNA---TLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       220 ~~~~~---~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      +..+.   .++.+||++|.|++++++.|.+.+.
T Consensus        93 ~~~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          93 AGLGLKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             hhcCCCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            23333   6899999999999999999988763

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.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=98.99  E-value=1.9e-08  Score=89.35  Aligned_cols=157  Identities=10%  Similarity=0.110  Sum_probs=96.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC----CCC------------CCCC-----CCcceee---EEEEEE-ECCeEEEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD----EKE------------QGGS-----PGEGLNM---MDKTLL-VRGARISYSIW  137 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~----~~~------------~~~~-----~t~~~~~---~~~~~~-~~~~~~~l~i~  137 (268)
                      .+.|.|+|..++|||||+++|.+.    ...            ++..     .|+..-|   ..-++. .++....+.+.
T Consensus        17 ~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlI   96 (492)
T TIGR02836        17 DIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLV   96 (492)
T ss_pred             cEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEE
Confidence            589999999999999999999886    322            1111     1222222   112222 24666788899


Q ss_pred             eCCCccc--------ccc--c-------------------hhhhhc-CCcEEEEEE-eCC----ChhhHHHH-HHHHHHH
Q 041042          138 EVTGDAK--------AQD--H-------------------LPVACK-DSIAILFMF-DLT----SRCTLKSV-IRWYQQA  181 (268)
Q Consensus       138 Dt~G~~~--------~~~--~-------------------~~~~~~-~a~~vilv~-D~~----~~~s~~~~-~~~~~~i  181 (268)
                      ||+|-..        ...  +                   ++..+. .+++.|+|. |.+    .++.+... .+|++++
T Consensus        97 DcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eL  176 (492)
T TIGR02836        97 DCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEEL  176 (492)
T ss_pred             ECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHH
Confidence            9998321        111  0                   223344 889999888 764    12334333 3677777


Q ss_pred             HHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC--CCcCHHHHHHHHHHHH
Q 041042          182 RKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT--YNINVNKILKFITAKL  248 (268)
Q Consensus       182 ~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~--~~~~i~~~f~~l~~~i  248 (268)
                      ++.  +.|.|+|.||.|-    .   .....+...++.++++++++.+|+.  +.+.|..+++.+....
T Consensus       177 k~~--~kPfiivlN~~dp----~---~~et~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~vL~EF  236 (492)
T TIGR02836       177 KEL--NKPFIILLNSTHP----Y---HPETEALRQELEEKYDVPVLAMDVESMRESDILSVLEEVLYEF  236 (492)
T ss_pred             Hhc--CCCEEEEEECcCC----C---CchhHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHHHHhcC
Confidence            664  4566899999992    1   1123444556778889998887774  4456777776665443

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.

>cd01900 YchF YchF subfamily

Probab=98.98  E-value=4.5e-09  Score=90.00  Aligned_cols=81  Identities=15%  Similarity=0.141  Sum_probs=54.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeE---------------EEEEEEeCCCcccc----c
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGAR---------------ISYSIWEVTGDAKA----Q  146 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~----~  146 (268)
                      |.++|.||||||||+|++++........|..+.+.....+.+.+..               ..++++|+||...-    .
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~   80 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE   80 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhh
Confidence            5799999999999999999987644444433333333444444432               35899999995432    2


Q ss_pred             cchhhh---hcCCcEEEEEEeCC
Q 041042          147 DHLPVA---CKDSIAILFMFDLT  166 (268)
Q Consensus       147 ~~~~~~---~~~a~~vilv~D~~  166 (268)
                      .+...|   ++.+|++++|+|+.
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence            233333   56899999999863

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.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=98.91  E-value=5.7e-09  Score=102.69  Aligned_cols=115  Identities=14%  Similarity=0.213  Sum_probs=76.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC--CC---------CCCC---CcceeeEE--EEEEE--------------CCeE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK--EQ---------GGSP---GEGLNMMD--KTLLV--------------RGAR  131 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~--~~---------~~~~---t~~~~~~~--~~~~~--------------~~~~  131 (268)
                      ...+|+|+|..++|||||+.+|+...-  ..         ++.+   .-|.++..  ..+.+              .+..
T Consensus        18 ~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (843)
T PLN00116         18 NIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDGNE   97 (843)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCCCc
Confidence            346899999999999999999975321  00         0000   00111111  11222              1235


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      ..++++||||+.+|.......++.+|++|+|+|+.+.-.-....-|.... .  .+.|.|++.||+|+
T Consensus        98 ~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~-~--~~~p~i~~iNK~D~  162 (843)
T PLN00116         98 YLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQAL-G--ERIRPVLTVNKMDR  162 (843)
T ss_pred             eEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHHH-H--CCCCEEEEEECCcc
Confidence            77899999999999888888889999999999998764444333443322 2  24566899999996

>PTZ00416 elongation factor 2; Provisional

Probab=98.91  E-value=5.9e-09  Score=102.43  Aligned_cols=114  Identities=13%  Similarity=0.193  Sum_probs=74.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCC--CCCC---------CCC---CcceeeE--EEEEEEC--------CeEEEEEEEe
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDE--KEQG---------GSP---GEGLNMM--DKTLLVR--------GARISYSIWE  138 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~--~~~~---------~~~---t~~~~~~--~~~~~~~--------~~~~~l~i~D  138 (268)
                      ..+|+++|..++|||||+.+|+...  ....         +.+   .-|.+..  ...+.++        +....+++.|
T Consensus        19 irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~liD   98 (836)
T PTZ00416         19 IRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINLID   98 (836)
T ss_pred             cCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEEEEc
Confidence            3589999999999999999997632  1000         000   0011111  1122222        2256789999


Q ss_pred             CCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       139 t~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      |||+.+|.......++.+|++|+|+|+.+.-.-+...-| ..+...  +.|.|++.||+|+
T Consensus        99 tPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~-~~~~~~--~~p~iv~iNK~D~  156 (836)
T PTZ00416         99 SPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVL-RQALQE--RIRPVLFINKVDR  156 (836)
T ss_pred             CCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHH-HHHHHc--CCCEEEEEEChhh
Confidence            999999887778888999999999998875433332233 333332  3466899999996

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.90  E-value=4.5e-09  Score=93.93  Aligned_cols=98  Identities=17%  Similarity=0.201  Sum_probs=72.4

Q ss_pred             ccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc-hhchHHHHHHHHH
Q 041042          142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL-QWTIASQARAYAK  220 (268)
Q Consensus       142 ~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~  220 (268)
                      ++.|..+...+++.++++++|+|+.+..     ..|..++.++..+.++++|+||+||   ++... .....+.++++++
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~~~~piilV~NK~DL---l~k~~~~~~~~~~l~~~~k  121 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFVGGNPVLLVGNKIDL---LPKSVNLSKIKEWMKKRAK  121 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHhCCCCEEEEEEchhh---CCCCCCHHHHHHHHHHHHH
Confidence            5678888899999999999999997654     3455666665445667899999998   33221 1122333445677


Q ss_pred             HhCC---eEEEEcCCCCcCHHHHHHHHHHH
Q 041042          221 ALNA---TLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       221 ~~~~---~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      +.++   .++++||++|.|++++|+.|.+.
T Consensus       122 ~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       122 ELGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             HcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            7777   48999999999999999998764

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.

>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=98.87  E-value=4.5e-09  Score=88.52  Aligned_cols=110  Identities=12%  Similarity=0.142  Sum_probs=55.5

Q ss_pred             EEEEEeCCCccccccchhhhh--------cCCcEEEEEEeCCC---hhhHHHHHHHHHHHHH-hCCCCceEEEEeCCCCC
Q 041042          133 SYSIWEVTGDAKAQDHLPVAC--------KDSIAILFMFDLTS---RCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~~~~~~--------~~a~~vilv~D~~~---~~s~~~~~~~~~~i~~-~~~~~~~ilvgnK~Dl~  200 (268)
                      .+.++|||||.++...+....        ...-++++++|..-   +..|-.  .++..+.. ..-+.|.|.|.||+|+ 
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s--~~L~s~s~~~~~~lP~vnvlsK~Dl-  168 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVS--SLLLSLSIMLRLELPHVNVLSKIDL-  168 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHH--HHHHHHHHHHHHTSEEEEEE--GGG-
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHH--HHHHHHHHHhhCCCCEEEeeeccCc-
Confidence            578999999988655444332        34568888999753   333422  22222211 1225566899999998 


Q ss_pred             CCCCccch--------------------hchHHHHHHHHHHhC-C-eEEEEcCCCCcCHHHHHHHHHHH
Q 041042          201 IQLPIDLQ--------------------WTIASQARAYAKALN-A-TLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       201 ~~~~~~~~--------------------~~~~~~~~~~~~~~~-~-~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                        ++....                    ....+.+.++...++ . .++.+|+++++++++++..+-+.
T Consensus       169 --~~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a  235 (238)
T PF03029_consen  169 --LSKYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKA  235 (238)
T ss_dssp             --S-HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHH
T ss_pred             --ccchhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHH
Confidence              331100                    000111222222233 3 68889999999999999987654

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

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.86  E-value=8.6e-08  Score=83.67  Aligned_cols=106  Identities=9%  Similarity=-0.062  Sum_probs=61.5

Q ss_pred             EEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhc
Q 041042          131 RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWT  210 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~  210 (268)
                      .+.+.|.||+|.-..   .......+|.++++-+..   +-+++......+.    ..+.++|.||+|+.   .......
T Consensus       126 g~D~viidT~G~~~~---e~~i~~~aD~i~vv~~~~---~~~el~~~~~~l~----~~~~ivv~NK~Dl~---~~~~~~~  192 (300)
T TIGR00750       126 GYDVIIVETVGVGQS---EVDIANMADTFVVVTIPG---TGDDLQGIKAGLM----EIADIYVVNKADGE---GATNVTI  192 (300)
T ss_pred             CCCEEEEeCCCCchh---hhHHHHhhceEEEEecCC---ccHHHHHHHHHHh----hhccEEEEEccccc---chhHHHH
Confidence            356789999984321   122456778888885433   3334333333332    33458999999972   2211111


Q ss_pred             hHH----HHHHHHHH---hCCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          211 IAS----QARAYAKA---LNATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       211 ~~~----~~~~~~~~---~~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      ...    ....+.+.   +..+++.+||++|.|++++++++.+...
T Consensus       193 ~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       193 ARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            111    11111121   2346899999999999999999987643

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.

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=98.85  E-value=2.1e-08  Score=93.67  Aligned_cols=163  Identities=17%  Similarity=0.183  Sum_probs=101.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCC----CcceeeEEEE--------EEECC----eEEEEEEEeCCCcc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSP----GEGLNMMDKT--------LLVRG----ARISYSIWEVTGDA  143 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~----t~~~~~~~~~--------~~~~~----~~~~l~i~Dt~G~~  143 (268)
                      +....=|||+|.-.+|||-|+..+.+.........    .+|-+|....        +.-++    ..--+.++||+|++
T Consensus       472 ~lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghE  551 (1064)
T KOG1144|consen  472 NLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHE  551 (1064)
T ss_pred             hcCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCch
Confidence            44455699999999999999999987654433333    2344443321        00011    11237789999999


Q ss_pred             ccccchhhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC---CCCCccc---------h
Q 041042          144 KAQDHLPVACKDSIAILFMFDLTS---RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF---IQLPIDL---------Q  208 (268)
Q Consensus       144 ~~~~~~~~~~~~a~~vilv~D~~~---~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~---~~~~~~~---------~  208 (268)
                      .|..++......||.+|+|+|+..   +.+.+.+.    .++.  .+.|.||..||+|-.   ...+...         .
T Consensus       552 sFtnlRsrgsslC~~aIlvvdImhGlepqtiESi~----lLR~--rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k  625 (1064)
T KOG1144|consen  552 SFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESIN----LLRM--RKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKK  625 (1064)
T ss_pred             hhhhhhhccccccceEEEEeehhccCCcchhHHHH----HHHh--cCCCeEEeehhhhhhcccccCCCchHHHHHHHhhH
Confidence            999999999999999999999864   34444432    2222  256778999999942   0011100         0


Q ss_pred             hch-------HHHHHHHHHH-hC-------------CeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          209 WTI-------ASQARAYAKA-LN-------------ATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       209 ~~~-------~~~~~~~~~~-~~-------------~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .+.       ...+.+|+++ ++             +.++.+||.+|+||.+++.+|++..
T Consensus       626 ~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~lt  686 (1064)
T KOG1144|consen  626 DVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLT  686 (1064)
T ss_pred             HHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHH
Confidence            000       1111222221 11             3457799999999999999887643

>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=98.85  E-value=4.6e-08  Score=77.69  Aligned_cols=62  Identities=11%  Similarity=0.039  Sum_probs=43.9

Q ss_pred             EEEEeCCCccc----cccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCC
Q 041042          134 YSIWEVTGDAK----AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKF  197 (268)
Q Consensus       134 l~i~Dt~G~~~----~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~  197 (268)
                      +.|+||||-..    ...++..|+..+|++|+|.+.+...+-.....|.+.......  ..|+|.||.
T Consensus       103 ~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~~--~~i~V~nk~  168 (168)
T PF00350_consen  103 LTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPDKS--RTIFVLNKA  168 (168)
T ss_dssp             EEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTTCS--SEEEEEE-G
T ss_pred             eEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCCCC--eEEEEEcCC
Confidence            67999999543    346678889999999999999886665555555555543322  267888984

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 ....

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.84  E-value=1.5e-07  Score=82.51  Aligned_cols=82  Identities=17%  Similarity=0.218  Sum_probs=57.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCC--CcceeeEEEEEEE------------C-C---eEEEEEEEeCCCcc-
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSP--GEGLNMMDKTLLV------------R-G---ARISYSIWEVTGDA-  143 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~--t~~~~~~~~~~~~------------~-~---~~~~l~i~Dt~G~~-  143 (268)
                      .+++-|+|.||||||||.|.++.........|  |+..+.  -.+.+            . .   ....+++.|.+|.- 
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~--Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~   79 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNV--GVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVK   79 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCe--eEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCC
Confidence            47999999999999999999998875444444  332222  22221            1 1   23568899999843 


Q ss_pred             ---ccccchhhh---hcCCcEEEEEEeCC
Q 041042          144 ---KAQDHLPVA---CKDSIAILFMFDLT  166 (268)
Q Consensus       144 ---~~~~~~~~~---~~~a~~vilv~D~~  166 (268)
                         .-+.+-+.|   +|.+|+++.|+|+.
T Consensus        80 GAs~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          80 GASKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             CcccCCCcchHHHHhhhhcCeEEEEEEec
Confidence               345566666   47899999999876

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.83  E-value=9.8e-08  Score=82.28  Aligned_cols=161  Identities=16%  Similarity=0.227  Sum_probs=99.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC----CCCCCCCC---CcceeeEEEEEEE-------CCeEEEEEEEeCCCccccccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD----EKEQGGSP---GEGLNMMDKTLLV-------RGARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~----~~~~~~~~---t~~~~~~~~~~~~-------~~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      .+++-++|.-.+|||+|.+++..-    -|+.+..+   .+..|..-..+.+       .++...+.+.|++|+..   +
T Consensus         7 n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHas---L   83 (522)
T KOG0461|consen    7 NLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHAS---L   83 (522)
T ss_pred             eeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHH---H
Confidence            489999999999999999998642    23322222   1222222122222       46678889999999854   3


Q ss_pred             hhhhhcC---CcEEEEEEeCCChhhHHHHHH-HHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch-HHHHHHHHHHh-
Q 041042          149 LPVACKD---SIAILFMFDLTSRCTLKSVIR-WYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI-ASQARAYAKAL-  222 (268)
Q Consensus       149 ~~~~~~~---a~~vilv~D~~~~~s~~~~~~-~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~~~~~-  222 (268)
                      .+..+-+   .|..++|+|+.....=+..+- .+.++.    ....|||.||+|+   +++.++... .+...++.+.+ 
T Consensus        84 IRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~----c~klvvvinkid~---lpE~qr~ski~k~~kk~~KtLe  156 (522)
T KOG0461|consen   84 IRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELL----CKKLVVVINKIDV---LPENQRASKIEKSAKKVRKTLE  156 (522)
T ss_pred             HHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhh----ccceEEEEecccc---ccchhhhhHHHHHHHHHHHHHH
Confidence            3444444   467799999875432222221 112211    2234788899997   666544433 33333333322 


Q ss_pred             ------CCeEEEEcCCCC----cCHHHHHHHHHHHHhcCcc
Q 041042          223 ------NATLFFSSATYN----INVNKILKFITAKLFDIPW  253 (268)
Q Consensus       223 ------~~~~~~~Sa~~~----~~i~~~f~~l~~~i~~~~~  253 (268)
                            +.|++++||+.|    ++|.++.+.|..++++...
T Consensus       157 ~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P~R  197 (522)
T KOG0461|consen  157 STGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFEPKR  197 (522)
T ss_pred             hcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcCCCc
Confidence                  268999999999    7888888888888877653

>PRK00098 GTPase RsgA; Reviewed

Probab=98.83  E-value=1.9e-08  Score=87.63  Aligned_cols=86  Identities=15%  Similarity=0.120  Sum_probs=64.4

Q ss_pred             hhcCCcEEEEEEeCCChhhHHH-HHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEc
Q 041042          152 ACKDSIAILFMFDLTSRCTLKS-VIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSS  230 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~-~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  230 (268)
                      ...++|++++|+|+++++++.. +.+|+..+..  .+.+++||+||+||.   .+   ....++..++.+..+++++++|
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~--~~ip~iIVlNK~DL~---~~---~~~~~~~~~~~~~~g~~v~~vS  148 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA--NGIKPIIVLNKIDLL---DD---LEEARELLALYRAIGYDVLELS  148 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH--CCCCEEEEEEhHHcC---CC---HHHHHHHHHHHHHCCCeEEEEe
Confidence            3589999999999998876544 4688777654  356778999999972   11   1123334455667789999999


Q ss_pred             CCCCcCHHHHHHHHH
Q 041042          231 ATYNINVNKILKFIT  245 (268)
Q Consensus       231 a~~~~~i~~~f~~l~  245 (268)
                      |+++.|++++++.+.
T Consensus       149 A~~g~gi~~L~~~l~  163 (298)
T PRK00098        149 AKEGEGLDELKPLLA  163 (298)
T ss_pred             CCCCccHHHHHhhcc
Confidence            999999999998764

>smart00275 G_alpha G protein alpha subunit

Probab=98.82  E-value=9.9e-08  Score=84.64  Aligned_cols=136  Identities=15%  Similarity=0.228  Sum_probs=87.1

Q ss_pred             CCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHH
Q 041042          113 SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSR----------CTLKSVIRWYQQAR  182 (268)
Q Consensus       113 ~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~----------~s~~~~~~~~~~i~  182 (268)
                      .+|+|...  ..+.+++  +.+.+||++|+...+..|.+|+.+++++|+|+|+++.          ..+.+....++.+-
T Consensus       169 ~~T~Gi~~--~~f~~~~--~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~  244 (342)
T smart00275      169 VPTTGIQE--TAFIVKK--LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESIC  244 (342)
T ss_pred             CCccceEE--EEEEECC--eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHH
Confidence            34555433  2344444  5578999999999999999999999999999999973          23444444444444


Q ss_pred             Hh--CCCCceEEEEeCCCCCCC----------CCccchhchHHHHHHHHH-----Hh------CCeEEEEcCCCCcCHHH
Q 041042          183 KC--NQTAIPIIIGTKFDDFIQ----------LPIDLQWTIASQARAYAK-----AL------NATLFFSSATYNINVNK  239 (268)
Q Consensus       183 ~~--~~~~~~ilvgnK~Dl~~~----------~~~~~~~~~~~~~~~~~~-----~~------~~~~~~~Sa~~~~~i~~  239 (268)
                      ..  -.+.|++|++||.|+...          .++-......+.+..+..     ..      .+-.+.|+|.+-.++..
T Consensus       245 ~~~~~~~~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~  324 (342)
T smart00275      245 NSRWFANTSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRV  324 (342)
T ss_pred             cCccccCCcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHH
Confidence            32  235566799999997521          111111112233333322     11      13345588999999999


Q ss_pred             HHHHHHHHHhcCc
Q 041042          240 ILKFITAKLFDIP  252 (268)
Q Consensus       240 ~f~~l~~~i~~~~  252 (268)
                      +|+.+...++...
T Consensus       325 v~~~v~~~I~~~~  337 (342)
T smart00275      325 VFDAVKDIILQRN  337 (342)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999888777643

Subunit of G proteins that contains the guanine nucleotide binding site

>PRK12289 GTPase RsgA; Reviewed

Probab=98.81  E-value=2.9e-08  Score=88.05  Aligned_cols=92  Identities=14%  Similarity=0.093  Sum_probs=68.1

Q ss_pred             ccchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA  224 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  224 (268)
                      ..+.+..+.++|.+++|+|+.++. ++..+.+|+..+..  .+.++|||+||+||   ..+   .. .+...+..+..|+
T Consensus        80 ~~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~--~~ip~ILVlNK~DL---v~~---~~-~~~~~~~~~~~g~  150 (352)
T PRK12289         80 TELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES--TGLEIVLCLNKADL---VSP---TE-QQQWQDRLQQWGY  150 (352)
T ss_pred             cceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH--CCCCEEEEEEchhc---CCh---HH-HHHHHHHHHhcCC
Confidence            445566789999999999998876 55567788876633  45677899999997   221   11 1222333456788


Q ss_pred             eEEEEcCCCCcCHHHHHHHHHH
Q 041042          225 TLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       225 ~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                      +++.+||++|.|++++++.+..
T Consensus       151 ~v~~iSA~tg~GI~eL~~~L~~  172 (352)
T PRK12289        151 QPLFISVETGIGLEALLEQLRN  172 (352)
T ss_pred             eEEEEEcCCCCCHHHHhhhhcc
Confidence            9999999999999999998864

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=98.81  E-value=1.2e-07  Score=86.69  Aligned_cols=160  Identities=15%  Similarity=0.120  Sum_probs=102.6

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcC--------------------CCCC---------CCCCCcceeeEEEEEEECC
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGD--------------------EKEQ---------GGSPGEGLNMMDKTLLVRG  129 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~--------------------~~~~---------~~~~t~~~~~~~~~~~~~~  129 (268)
                      .....+.++++|.-.+|||||+.+++..                    +..-         .....-|++...+...++.
T Consensus       173 ~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes  252 (603)
T KOG0458|consen  173 DPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFES  252 (603)
T ss_pred             CCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEec
Confidence            3445789999999999999999988541                    1100         0111125555556666677


Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHH----H--HHHHHHHHhCCCCceEEEEeCCCCCCCC
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV----I--RWYQQARKCNQTAIPIIIGTKFDDFIQL  203 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~----~--~~~~~i~~~~~~~~~ilvgnK~Dl~~~~  203 (268)
                      ....+.+.|.||+..|-.-.-.-...||+.+||+|++- ..|+.=    .  +-...+.+.-.-.-.||+.||.|+.. .
T Consensus       253 ~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~-~~FE~gfd~~gQtrEha~llr~Lgi~qlivaiNKmD~V~-W  330 (603)
T KOG0458|consen  253 KSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDAST-GEFESGFDPGGQTREHALLLRSLGISQLIVAINKMDLVS-W  330 (603)
T ss_pred             CceeEEEecCCCccccchhhhccccccceEEEEEECCc-chhhhccCCCCchHHHHHHHHHcCcceEEEEeecccccC-c
Confidence            77789999999988886655555678999999999863 333221    1  11112222222233468999999721 1


Q ss_pred             CccchhchHHHHHHHH-HHhC-----CeEEEEcCCCCcCHHHH
Q 041042          204 PIDLQWTIASQARAYA-KALN-----ATLFFSSATYNINVNKI  240 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~-~~~~-----~~~~~~Sa~~~~~i~~~  240 (268)
                      ++++-..+...+..|. +..|     +.|+.||+.+|+|+-..
T Consensus       331 sq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  331 SQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             cHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            1222234466677777 5555     46999999999997654

>cd01859 MJ1464 MJ1464

Probab=98.79  E-value=2.7e-08  Score=78.32  Aligned_cols=95  Identities=13%  Similarity=0.060  Sum_probs=63.8

Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT  225 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (268)
                      +.+.++.++++|++|+|+|++++..... ..+...+..  .+.|+++|+||+|+   .+.   ... +....+.+..+.+
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~~--~~~p~iiv~NK~Dl---~~~---~~~-~~~~~~~~~~~~~   72 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVLE--LGKKLLIVLNKADL---VPK---EVL-EKWKSIKESEGIP   72 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHHh--CCCcEEEEEEhHHh---CCH---HHH-HHHHHHHHhCCCc
Confidence            4567788889999999999987543222 122222221  24566899999997   221   111 1122344456778


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          226 LFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      ++.+||+++.|++++++.+.+.+..
T Consensus        73 ~~~iSa~~~~gi~~L~~~l~~~~~~   97 (156)
T cd01859          73 VVYVSAKERLGTKILRRTIKELAKI   97 (156)
T ss_pred             EEEEEccccccHHHHHHHHHHHHhh
Confidence            9999999999999999999877653

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.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=98.79  E-value=7.7e-08  Score=90.05  Aligned_cols=114  Identities=15%  Similarity=0.185  Sum_probs=70.8

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCC-CCCCCC-C-CcceeeEEEEEEECCeEEEEEEEeCCCccccc-------cc---
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDE-KEQGGS-P-GEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ-------DH---  148 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~-~~~~~~-~-t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-------~~---  148 (268)
                      ..++|+|+|.+||||||++|.+++.. +..... + |..  ........++  ..+.++||+|-....       .+   
T Consensus       117 fslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr--~~ei~~~idG--~~L~VIDTPGL~dt~~dq~~neeILk~  192 (763)
T TIGR00993       117 FSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTS--VQEIEGLVQG--VKIRVIDTPGLKSSASDQSKNEKILSS  192 (763)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceE--EEEEEEEECC--ceEEEEECCCCCccccchHHHHHHHHH
Confidence            45899999999999999999999975 433321 2 222  1112223444  458899999965421       11   


Q ss_pred             hhhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCc---eEEEEeCCCC
Q 041042          149 LPVACK--DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAI---PIIIGTKFDD  199 (268)
Q Consensus       149 ~~~~~~--~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~---~ilvgnK~Dl  199 (268)
                      ...++.  ..|++|+|..++......+-..+++.+.......+   .|||.|+.|.
T Consensus       193 Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~  248 (763)
T TIGR00993       193 VKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAAS  248 (763)
T ss_pred             HHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCcc
Confidence            122333  58999999887643332222355666665544322   3799999997

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.

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

Probab=98.79  E-value=7.6e-08  Score=80.62  Aligned_cols=114  Identities=10%  Similarity=0.058  Sum_probs=61.3

Q ss_pred             EEEEEEeCCCccc-ccc-----chhhhhc--CCcEEEEEEeCC---ChhhHHH-HHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          132 ISYSIWEVTGDAK-AQD-----HLPVACK--DSIAILFMFDLT---SRCTLKS-VIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       132 ~~l~i~Dt~G~~~-~~~-----~~~~~~~--~a~~vilv~D~~---~~~s~~~-~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      ....++|||||-. |..     +....+.  ..-++++|+|..   ++.+|-. +-.-...+  +...-|.|+|.||+|+
T Consensus       116 ~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSil--yktklp~ivvfNK~Dv  193 (366)
T KOG1532|consen  116 FDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSIL--YKTKLPFIVVFNKTDV  193 (366)
T ss_pred             cCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHH--HhccCCeEEEEecccc
Confidence            4578999999754 321     1111222  234777888853   3444422 11111111  2234455899999996


Q ss_pred             CCCCCccc---hhch-HHHHHHHHH-------------------H--hCCeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          200 FIQLPIDL---QWTI-ASQARAYAK-------------------A--LNATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       200 ~~~~~~~~---~~~~-~~~~~~~~~-------------------~--~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      .    +..   .+.. .+..++-.+                   +  .++..+-+||.+|.|.+++|..+-+.+.+-
T Consensus       194 ~----d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  194 S----DSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDEY  266 (366)
T ss_pred             c----ccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHHH
Confidence            3    211   1111 111111011                   1  135678899999999999999887665543

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.79  E-value=3.4e-08  Score=84.35  Aligned_cols=169  Identities=14%  Similarity=0.106  Sum_probs=107.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC---CCCCCCC--CcceeeEEEEE------------------EEC----CeEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE---KEQGGSP--GEGLNMMDKTL------------------LVR----GARIS  133 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~---~~~~~~~--t~~~~~~~~~~------------------~~~----~~~~~  133 (268)
                      +..++|-++|.-.-|||||.+.+.+--   +.+....  |+..-|....+                  ...    .-.-.
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~   87 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRR   87 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEE
Confidence            457899999999999999999997631   1111111  01000100000                  001    11235


Q ss_pred             EEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHH
Q 041042          134 YSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIAS  213 (268)
Q Consensus       134 l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~  213 (268)
                      +.|.|.+|+|-..+..-+-..-.|+++||++++.++---...+-+-.+.-. .-.-+|||-||+||   ...++-.+..+
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi-gik~iiIvQNKIDl---V~~E~AlE~y~  163 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII-GIKNIIIVQNKIDL---VSRERALENYE  163 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh-ccceEEEEecccce---ecHHHHHHHHH
Confidence            779999999875433322223358999999998765332222222222211 12335799999998   55555556688


Q ss_pred             HHHHHHHHh---CCeEEEEcCCCCcCHHHHHHHHHHHHhcCcc
Q 041042          214 QARAYAKAL---NATLFFSSATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       214 ~~~~~~~~~---~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      ++++|.+..   +.+++.+||..+.||+.+++.|.+.+.....
T Consensus       164 qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~r  206 (415)
T COG5257         164 QIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTPER  206 (415)
T ss_pred             HHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCCcc
Confidence            888888754   6789999999999999999999999877653

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=98.77  E-value=5.9e-08  Score=77.61  Aligned_cols=148  Identities=17%  Similarity=0.114  Sum_probs=81.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCC-CcceeeEE-------------EEEEE---------------------
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSP-GEGLNMMD-------------KTLLV---------------------  127 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~-t~~~~~~~-------------~~~~~---------------------  127 (268)
                      .+.|-|.|++|+|||+|+.+++..--.. |.. -+..|.++             ..+.+                     
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t~~Da~~l~~~~g~~i~~v~TG~~CH~da~m~~~ai~~l~   91 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITGDIYTKEDADRLRKLPGEPIIGVETGKGCHLDASMNLEAIEELV   91 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEeceeechhhHHHHHhCCCCeeEEeccCCccCCcHHHHHHHHHHHh
Confidence            4899999999999999999876421100 110 00001110             01111                     


Q ss_pred             -CCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCC--ceEEEEeCCCCCCCCC
Q 041042          128 -RGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA--IPIIIGTKFDDFIQLP  204 (268)
Q Consensus       128 -~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~--~~ilvgnK~Dl~~~~~  204 (268)
                       ......+.|.+.+|  .. ...-.+.-..+.-|+|+|++..+--         .++..|..  .-++|.||.||..+..
T Consensus        92 ~~~~~~Dll~iEs~G--NL-~~~~sp~L~d~~~v~VidvteGe~~---------P~K~gP~i~~aDllVInK~DLa~~v~  159 (202)
T COG0378          92 LDFPDLDLLFIESVG--NL-VCPFSPDLGDHLRVVVIDVTEGEDI---------PRKGGPGIFKADLLVINKTDLAPYVG  159 (202)
T ss_pred             hcCCcCCEEEEecCc--ce-ecccCcchhhceEEEEEECCCCCCC---------cccCCCceeEeeEEEEehHHhHHHhC
Confidence             01113455666666  11 1111222334478889998875421         11112211  2379999999832211


Q ss_pred             ccchhchHHHHHHHHHHh--CCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          205 IDLQWTIASQARAYAKAL--NATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .     ..+...+-+++.  +.+++++|+++|+|++++++++....
T Consensus       160 ~-----dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         160 A-----DLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             c-----cHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            1     123333334433  58999999999999999999987654

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.77  E-value=4.3e-08  Score=85.01  Aligned_cols=89  Identities=17%  Similarity=0.135  Sum_probs=68.2

Q ss_pred             hhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEE
Q 041042          149 LPVACKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLF  227 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (268)
                      .+..+.++|.+++|+|+.++. ++..+.+|+..+...  +.++++|+||+||   .++   . .......+....+.+++
T Consensus        72 ~~~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~--~ip~iIVlNK~DL---~~~---~-~~~~~~~~~~~~g~~v~  142 (287)
T cd01854          72 EQVIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAA--GIEPVIVLTKADL---LDD---E-EEELELVEALALGYPVL  142 (287)
T ss_pred             ceeEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHc--CCCEEEEEEHHHC---CCh---H-HHHHHHHHHHhCCCeEE
Confidence            344588999999999999988 888999998877653  5677899999997   222   1 11222334455789999


Q ss_pred             EEcCCCCcCHHHHHHHHHH
Q 041042          228 FSSATYNINVNKILKFITA  246 (268)
Q Consensus       228 ~~Sa~~~~~i~~~f~~l~~  246 (268)
                      .+||+++.|+++++..+..
T Consensus       143 ~vSA~~g~gi~~L~~~L~~  161 (287)
T cd01854         143 AVSAKTGEGLDELREYLKG  161 (287)
T ss_pred             EEECCCCccHHHHHhhhcc
Confidence            9999999999999887753

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.

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=98.75  E-value=8.3e-08  Score=85.13  Aligned_cols=164  Identities=14%  Similarity=0.125  Sum_probs=78.3

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcce---eeEEEEEEECCeEEEEEEEeCCCccccccchhhh-----h
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL---NMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVA-----C  153 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~---~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~-----~  153 (268)
                      ..++|+|+|++|+|||||||.|.+-.-.+.....+|+   +.....+... ..-.+.+||.||...-.--...|     +
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p-~~pnv~lWDlPG~gt~~f~~~~Yl~~~~~  112 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHP-KFPNVTLWDLPGIGTPNFPPEEYLKEVKF  112 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-S-S-TTEEEEEE--GGGSS--HHHHHHHTTG
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCC-CCCCCeEEeCCCCCCCCCCHHHHHHHccc
Confidence            3589999999999999999999763222221222222   1111122211 22237799999954322222333     4


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHH-HHHHHhCCCCceEEEEeCCCCC-----CCCC-ccchhchHHHHHHHHHH----h
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWY-QQARKCNQTAIPIIIGTKFDDF-----IQLP-IDLQWTIASQARAYAKA----L  222 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~-~~i~~~~~~~~~ilvgnK~Dl~-----~~~~-~~~~~~~~~~~~~~~~~----~  222 (268)
                      ...|.+|++.+-    .|..-.-|+ ..+.+.  +.+..+|-+|+|.-     +..+ .-.+....+++++-|.+    .
T Consensus       113 ~~yD~fiii~s~----rf~~ndv~La~~i~~~--gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k~  186 (376)
T PF05049_consen  113 YRYDFFIIISSE----RFTENDVQLAKEIQRM--GKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQKA  186 (376)
T ss_dssp             GG-SEEEEEESS----S--HHHHHHHHHHHHT--T-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHCT
T ss_pred             cccCEEEEEeCC----CCchhhHHHHHHHHHc--CCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHHc
Confidence            567888888753    343333332 333332  44557999999930     0000 00112223444444433    3


Q ss_pred             CC---eEEEEcCCCC--cCHHHHHHHHHHHHhcCc
Q 041042          223 NA---TLFFSSATYN--INVNKILKFITAKLFDIP  252 (268)
Q Consensus       223 ~~---~~~~~Sa~~~--~~i~~~f~~l~~~i~~~~  252 (268)
                      |+   ++|-+|+.+-  .+...+.+.|.+.+...+
T Consensus       187 gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~K  221 (376)
T PF05049_consen  187 GVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAHK  221 (376)
T ss_dssp             T-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GGG
T ss_pred             CCCcCceEEEeCCCcccCChHHHHHHHHHHhHHHH
Confidence            43   5777888753  457778888887776654

IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.73  E-value=5.2e-07  Score=74.79  Aligned_cols=152  Identities=16%  Similarity=0.238  Sum_probs=98.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCC-CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc-------hhhhhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQ-GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH-------LPVACK  154 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-------~~~~~~  154 (268)
                      ..+|+++|.|.||||||+..+....-.. .|.-| ..+-....+.++|..  +|+.|.||.-.-.+.       .-...+
T Consensus        62 daRValIGfPSVGKStlLs~iT~T~SeaA~yeFT-TLtcIpGvi~y~ga~--IQllDLPGIieGAsqgkGRGRQviavAr  138 (364)
T KOG1486|consen   62 DARVALIGFPSVGKSTLLSKITSTHSEAASYEFT-TLTCIPGVIHYNGAN--IQLLDLPGIIEGASQGKGRGRQVIAVAR  138 (364)
T ss_pred             CeEEEEecCCCccHHHHHHHhhcchhhhhceeee-EEEeecceEEecCce--EEEecCcccccccccCCCCCceEEEEee
Confidence            3699999999999999999997754322 23222 233344556667766  788999984332211       122357


Q ss_pred             CCcEEEEEEeCCChhhHH-HHHHHHHHHHHh----CCC------------------------------------------
Q 041042          155 DSIAILFMFDLTSRCTLK-SVIRWYQQARKC----NQT------------------------------------------  187 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~-~~~~~~~~i~~~----~~~------------------------------------------  187 (268)
                      .||.+++|.|++..+.-. -+.+-++.+--.    .|+                                          
T Consensus       139 taDlilMvLDatk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~~ILheykI~Naevl  218 (364)
T KOG1486|consen  139 TADLILMVLDATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIYTILHEYKIHNAEVL  218 (364)
T ss_pred             cccEEEEEecCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHHHHHHHHeeccceEE
Confidence            899999999998765433 223334433110    000                                          


Q ss_pred             -----------------C--ce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHH
Q 041042          188 -----------------A--IP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       188 -----------------~--~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                                       .  .+ +-|.||+|.          +..+++..+|++-+.  +.+|+-.+.|++.+++.+.+.
T Consensus       219 ~ReD~t~DdfIDvi~gnr~Y~~ClYvYnKID~----------vs~eevdrlAr~Pns--vViSC~m~lnld~lle~iWe~  286 (364)
T KOG1486|consen  219 FREDCTVDDFIDVIEGNRVYIKCLYVYNKIDQ----------VSIEEVDRLARQPNS--VVISCNMKLNLDRLLERIWEE  286 (364)
T ss_pred             EecCCChHHHHHHHhccceEEEEEEEeeccce----------ecHHHHHHHhcCCCc--EEEEeccccCHHHHHHHHHHH
Confidence                             0  12 467788882          456888888888765  556777888999999988876


Q ss_pred             Hh
Q 041042          248 LF  249 (268)
Q Consensus       248 i~  249 (268)
                      +.
T Consensus       287 l~  288 (364)
T KOG1486|consen  287 LN  288 (364)
T ss_pred             hc
Confidence            54

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.72  E-value=1.9e-07  Score=81.33  Aligned_cols=141  Identities=18%  Similarity=0.247  Sum_probs=92.3

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCC----------CCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc------
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQG----------GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA------  145 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~------  145 (268)
                      ..+.|+++|..|.|||||+|.|++......          ..+|+........+.-++..+.|++.||+|--.+      
T Consensus        22 i~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~  101 (373)
T COG5019          22 IDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKC  101 (373)
T ss_pred             CceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCcccccccccc
Confidence            358999999999999999999988643222          2344444444445555788899999999993221      


Q ss_pred             --------ccchhhhh--------------cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCC
Q 041042          146 --------QDHLPVAC--------------KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL  203 (268)
Q Consensus       146 --------~~~~~~~~--------------~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~  203 (268)
                              ......|+              ...|++++..-.+. ..+..+.  +..+++.....-.|=|..|+|.   +
T Consensus       102 we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptg-h~l~~~D--Ie~Mk~ls~~vNlIPVI~KaD~---l  175 (373)
T COG5019         102 WEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTG-HGLKPLD--IEAMKRLSKRVNLIPVIAKADT---L  175 (373)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCC-CCCCHHH--HHHHHHHhcccCeeeeeecccc---C
Confidence                    01112222              23689999987653 2232222  2333344434445667789997   6


Q ss_pred             CccchhchHHHHHHHHHHhCCeEEE
Q 041042          204 PIDLQWTIASQARAYAKALNATLFF  228 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~  228 (268)
                      ..+.....++.+.+-...+++++|.
T Consensus       176 T~~El~~~K~~I~~~i~~~nI~vf~  200 (373)
T COG5019         176 TDDELAEFKERIREDLEQYNIPVFD  200 (373)
T ss_pred             CHHHHHHHHHHHHHHHHHhCCceeC
Confidence            6666666688888888899998885

>PRK12288 GTPase RsgA; Reviewed

Probab=98.72  E-value=9.5e-08  Score=84.74  Aligned_cols=88  Identities=11%  Similarity=0.133  Sum_probs=67.0

Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          153 CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      ..++|.+++|++++...++..+..|+..+..  .+.+++||+||+||   +++.. .....+.....+..+++++++||+
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~--~~i~~VIVlNK~DL---~~~~~-~~~~~~~~~~y~~~g~~v~~vSA~  191 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET--LGIEPLIVLNKIDL---LDDEG-RAFVNEQLDIYRNIGYRVLMVSSH  191 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh--cCCCEEEEEECccC---CCcHH-HHHHHHHHHHHHhCCCeEEEEeCC
Confidence            3569999999999988899999999876543  35677899999997   33221 112233333445678999999999


Q ss_pred             CCcCHHHHHHHHHH
Q 041042          233 YNINVNKILKFITA  246 (268)
Q Consensus       233 ~~~~i~~~f~~l~~  246 (268)
                      ++.|++++++.|..
T Consensus       192 tg~GideL~~~L~~  205 (347)
T PRK12288        192 TGEGLEELEAALTG  205 (347)
T ss_pred             CCcCHHHHHHHHhh
Confidence            99999999998865

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.71  E-value=6.9e-08  Score=82.61  Aligned_cols=147  Identities=12%  Similarity=0.026  Sum_probs=91.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCC--CCCCcceeeEEEEEEEC-CeEEEEEEEeCCCccc---------cccchhh
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQG--GSPGEGLNMMDKTLLVR-GARISYSIWEVTGDAK---------AQDHLPV  151 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~--~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~---------~~~~~~~  151 (268)
                      --|.++|-.|+|||||+++|.+....+.  .-.|...+.  +..... |..  +.+-||-|--.         |.+... 
T Consensus       179 pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~--h~a~Lpsg~~--vlltDTvGFisdLP~~LvaAF~ATLe-  253 (410)
T KOG0410|consen  179 PVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTL--HSAHLPSGNF--VLLTDTVGFISDLPIQLVAAFQATLE-  253 (410)
T ss_pred             ceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchh--hhccCCCCcE--EEEeechhhhhhCcHHHHHHHHHHHH-
Confidence            4689999999999999999986543332  222332222  233333 333  55789988321         222221 


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCC-Cce----EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeE
Q 041042          152 ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQT-AIP----IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATL  226 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~----ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  226 (268)
                      -...+|.++-|.|++.++.-+.....+.-+....-. .|.    |=|-||+|.....++             .++++  .
T Consensus       254 eVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~e-------------~E~n~--~  318 (410)
T KOG0410|consen  254 EVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEVE-------------EEKNL--D  318 (410)
T ss_pred             HHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccCc-------------cccCC--c
Confidence            246799999999999998766655555555544322 121    347899996221111             22233  5


Q ss_pred             EEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          227 FFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      +.+||++|+|++++.+.+-..+..
T Consensus       319 v~isaltgdgl~el~~a~~~kv~~  342 (410)
T KOG0410|consen  319 VGISALTGDGLEELLKAEETKVAS  342 (410)
T ss_pred             cccccccCccHHHHHHHHHHHhhh
Confidence            789999999999999887665544

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.71  E-value=1e-07  Score=83.57  Aligned_cols=122  Identities=16%  Similarity=0.194  Sum_probs=78.8

Q ss_pred             EEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhH-------HHHHHHHHHHHHh-----CCCCceEEEEeCCC
Q 041042          131 RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTL-------KSVIRWYQQARKC-----NQTAIPIIIGTKFD  198 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~-------~~~~~~~~~i~~~-----~~~~~~ilvgnK~D  198 (268)
                      ...+.++|++||..-+.-|-+++.+++++|+|.++++.+..       ..+.+-++.+...     -.+..+||..||.|
T Consensus       194 ~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~D  273 (354)
T KOG0082|consen  194 GLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKD  273 (354)
T ss_pred             CCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHH
Confidence            36688999999988888899999999999999998865421       1122222222222     13567789999999


Q ss_pred             CCC-C---------CCccchhchHHHHHHHHHH--------h--CCeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          199 DFI-Q---------LPIDLQWTIASQARAYAKA--------L--NATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       199 l~~-~---------~~~~~~~~~~~~~~~~~~~--------~--~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      |.. +         .++-......+++..+.+.        .  .+=+..+.|.+-.+|+.+|+.+.+.++...
T Consensus       274 LFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~n  347 (354)
T KOG0082|consen  274 LFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQNN  347 (354)
T ss_pred             HHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHHH
Confidence            862 1         1111111123333333221        1  122445888888999999999998887654

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=98.63  E-value=1.3e-07  Score=81.29  Aligned_cols=55  Identities=15%  Similarity=0.239  Sum_probs=36.7

Q ss_pred             ceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-hCCeEEEEcCCCCcCHHHHHHHHHHH
Q 041042          189 IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-LNATLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       189 ~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      .-++|.||+||   ++.. ..........+.+. ..++++.+||++|+|+++++++|..+
T Consensus       232 ADIVVLNKiDL---l~~~-~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        232 ASLMLLNKVDL---LPYL-NFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             CcEEEEEhHHc---Cccc-HHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            44899999997   3211 11122222222222 25789999999999999999999764

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.63  E-value=8.2e-08  Score=74.35  Aligned_cols=54  Identities=24%  Similarity=0.378  Sum_probs=39.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD  142 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~  142 (268)
                      +++++|.+|||||||+|++.+..... ...+.|.+.....+.+++   .+.+|||||-
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVS-VSATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee-eCCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            89999999999999999999887532 222334444445555654   4689999995

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.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.63  E-value=4.2e-07  Score=80.90  Aligned_cols=154  Identities=17%  Similarity=0.065  Sum_probs=95.0

Q ss_pred             EEEEcCCCChHHHHHHHHhcCCC---CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDEK---EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~~---~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      |...|.---|||||++.+.+..-   .+....  |.+....-...+-....+.|.|.+|++++-...-.-+...|.+++|
T Consensus         3 i~t~GhidHgkT~L~~altg~~~d~l~EekKR--G~TiDlg~~y~~~~d~~~~fIDvpgh~~~i~~miag~~~~d~alLv   80 (447)
T COG3276           3 IGTAGHIDHGKTTLLKALTGGVTDRLPEEKKR--GITIDLGFYYRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALLV   80 (447)
T ss_pred             EEEeeeeeccchhhhhhhcccccccchhhhhc--CceEeeeeEeccCCCCceEEeeCCCcHHHHHHHHhhhcCCceEEEE
Confidence            56677888999999999987542   111111  2222222222233344788999999999765555556688999999


Q ss_pred             EeCCCh---hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          163 FDLTSR---CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       163 ~D~~~~---~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      +|.++.   ++-+.+    .-++.. ...-.++|.||+|.   ..+.+.....+++.....--..++|.+|+++|+||++
T Consensus        81 V~~deGl~~qtgEhL----~iLdll-gi~~giivltk~D~---~d~~r~e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~  152 (447)
T COG3276          81 VAADEGLMAQTGEHL----LILDLL-GIKNGIIVLTKADR---VDEARIEQKIKQILADLSLANAKIFKTSAKTGRGIEE  152 (447)
T ss_pred             EeCccCcchhhHHHH----HHHHhc-CCCceEEEEecccc---ccHHHHHHHHHHHHhhcccccccccccccccCCCHHH
Confidence            999643   333332    222222 12223799999996   2222111122222222223346789999999999999


Q ss_pred             HHHHHHHHHh
Q 041042          240 ILKFITAKLF  249 (268)
Q Consensus       240 ~f~~l~~~i~  249 (268)
                      +.+.|.+...
T Consensus       153 Lk~~l~~L~~  162 (447)
T COG3276         153 LKNELIDLLE  162 (447)
T ss_pred             HHHHHHHhhh
Confidence            9999998875

>smart00053 DYNc Dynamin, GTPase

Probab=98.62  E-value=6.1e-07  Score=75.47  Aligned_cols=25  Identities=36%  Similarity=0.660  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .-.++|+|+.|+||||+++.+.+..
T Consensus        26 ~p~i~vvG~~~~GKSt~l~~i~g~~   50 (240)
T smart00053       26 LPQIAVVGGQSAGKSSVLENFVGRD   50 (240)
T ss_pred             CCeEEEEcCCCccHHHHHHHHhCCC
Confidence            3489999999999999999999865

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.62  E-value=1e-06  Score=77.42  Aligned_cols=144  Identities=14%  Similarity=0.169  Sum_probs=91.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCC---------CCCCcceeeEEEEEEECCeEEEEEEEeCCCccc-------cc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQG---------GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK-------AQ  146 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~---------~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-------~~  146 (268)
                      .|.++++|++|.|||||+|.|+...+..+         ...|+........+.-+|..+.|.+.||+|--.       +.
T Consensus        21 ~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w~  100 (366)
T KOG2655|consen   21 DFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCWR  100 (366)
T ss_pred             ceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccch
Confidence            48999999999999999999887654332         222344444444444578889999999999322       11


Q ss_pred             c-------chhhhh-----------c--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCcc
Q 041042          147 D-------HLPVAC-----------K--DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPID  206 (268)
Q Consensus       147 ~-------~~~~~~-----------~--~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~  206 (268)
                      .       ....|+           .  ..|++++....+.. .+..+.  +..+++.....-.|-|..|+|.   +..+
T Consensus       101 pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~gh-gL~p~D--i~~Mk~l~~~vNiIPVI~KaD~---lT~~  174 (366)
T KOG2655|consen  101 PIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGH-GLKPLD--IEFMKKLSKKVNLIPVIAKADT---LTKD  174 (366)
T ss_pred             hhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCC-CCcHhh--HHHHHHHhccccccceeecccc---CCHH
Confidence            1       111222           2  57899999886542 222222  2334444444445667889997   5555


Q ss_pred             chhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          207 LQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      .....+..+.+-+..+++++|.-..-
T Consensus       175 El~~~K~~I~~~i~~~nI~vf~fp~~  200 (366)
T KOG2655|consen  175 ELNQFKKRIRQDIEEHNIKVFDFPTD  200 (366)
T ss_pred             HHHHHHHHHHHHHHHcCcceecCCCC
Confidence            55566788888888899887774433

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=98.58  E-value=6.6e-07  Score=73.66  Aligned_cols=143  Identities=9%  Similarity=0.200  Sum_probs=87.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCC---------CCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc---c----
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQ---------GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA---Q----  146 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~---------~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~---~----  146 (268)
                      .|.|+|+|.+|.|||||+|.+.......         .+..|+.....+..+.-++.+.++.++||+|--..   .    
T Consensus        46 ~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncWe  125 (336)
T KOG1547|consen   46 DFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCWE  125 (336)
T ss_pred             ceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchhH
Confidence            5899999999999999999987643221         23334444444455556788899999999993211   1    


Q ss_pred             -------cchhhhhc--------------CCcEEEEEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCC
Q 041042          147 -------DHLPVACK--------------DSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLP  204 (268)
Q Consensus       147 -------~~~~~~~~--------------~a~~vilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~  204 (268)
                             .....|++              ..+++++..-.+- .++.-+. .+++.+.+   -.-+|-|..|+|-   +.
T Consensus       126 PI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptG-hsLrplDieflkrLt~---vvNvvPVIakaDt---lT  198 (336)
T KOG1547|consen  126 PIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTG-HSLRPLDIEFLKRLTE---VVNVVPVIAKADT---LT  198 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCC-CccCcccHHHHHHHhh---hheeeeeEeeccc---cc
Confidence                   11222321              3578888887663 3333332 22333322   2223456789994   44


Q ss_pred             ccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          205 IDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      -+++..-.+.+++-...+++.+|.--+-
T Consensus       199 leEr~~FkqrI~~el~~~~i~vYPq~~f  226 (336)
T KOG1547|consen  199 LEERSAFKQRIRKELEKHGIDVYPQDSF  226 (336)
T ss_pred             HHHHHHHHHHHHHHHHhcCccccccccc
Confidence            3445555777888888889887774333

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.58  E-value=9.2e-07  Score=73.25  Aligned_cols=163  Identities=14%  Similarity=0.148  Sum_probs=100.4

Q ss_pred             EEEEEcCCCC--hHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           85 KISLLGDCHI--GKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        85 ki~vlG~~~v--GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      -++|+|-+||  ||-+|+.++....|.....+.-...++.+++........+.+.-..--+.+.-..........++++|
T Consensus         6 ~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hgwtid~kyysadi~lcishicde~~lpn~~~a~pl~a~vmv   85 (418)
T KOG4273|consen    6 CALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHGWTIDNKYYSADINLCISHICDEKFLPNAEIAEPLQAFVMV   85 (418)
T ss_pred             eEEEecccccccchHHHHHHhcchhheeeccccCceeeeceEecceeeecceeEEeecccchhccCCcccccceeeEEEE
Confidence            5789999999  99999999998888766555444455555442221111122211111111111111112345689999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCC---------------C------------------------
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQ---------------L------------------------  203 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~---------------~------------------------  203 (268)
                      ||++....+..++.|+....-.. -.+.+.+|||.|....               .                        
T Consensus        86 fdlse~s~l~alqdwl~htdins-fdillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgisetegssllg  164 (418)
T KOG4273|consen   86 FDLSEKSGLDALQDWLPHTDINS-FDILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISETEGSSLLG  164 (418)
T ss_pred             EeccchhhhHHHHhhcccccccc-chhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhccccccccccccc
Confidence            99999999999999987543221 2344578999994311               0                        


Q ss_pred             CccchhchHHHHHHHHHHhCCeEEEEcCCC------------CcCHHHHHHHHHHHH
Q 041042          204 PIDLQWTIASQARAYAKALNATLFFSSATY------------NINVNKILKFITAKL  248 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~------------~~~i~~~f~~l~~~i  248 (268)
                      +++..-.+...+.+||.++|+.+++.+|.+            ..||+.+|..+-..+
T Consensus       165 sedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahm  221 (418)
T KOG4273|consen  165 SEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHM  221 (418)
T ss_pred             cccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhcc
Confidence            000011335667889999999999998853            257888888776543

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=98.52  E-value=7.2e-07  Score=85.37  Aligned_cols=113  Identities=12%  Similarity=0.168  Sum_probs=80.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCC--CC--CCCC---------C---CcceeeEEEEE--EECCeEEEEEEEeCCCccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDE--KE--QGGS---------P---GEGLNMMDKTL--LVRGARISYSIWEVTGDAK  144 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~--~~--~~~~---------~---t~~~~~~~~~~--~~~~~~~~l~i~Dt~G~~~  144 (268)
                      .-+|.|+|.-.+|||||..+++...  ..  ....         +   .-|.+..+..+  ...+ .+.++++||||+-+
T Consensus        10 ~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~-~~~iNlIDTPGHVD   88 (697)
T COG0480          10 IRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKG-DYRINLIDTPGHVD   88 (697)
T ss_pred             ceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcC-ceEEEEeCCCCccc
Confidence            4689999999999999999986421  10  0000         0   11333333333  3333 57899999999999


Q ss_pred             cccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       145 ~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      |.......++-+|++++|+|+...-..+.-.-|.+..+.   +.|+|++.||.|.
T Consensus        89 Ft~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~~---~vp~i~fiNKmDR  140 (697)
T COG0480          89 FTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADKY---GVPRILFVNKMDR  140 (697)
T ss_pred             cHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHhhc---CCCeEEEEECccc
Confidence            999999999999999999999876555555566554433   5677999999995

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.50  E-value=1.6e-06  Score=71.51  Aligned_cols=167  Identities=19%  Similarity=0.216  Sum_probs=96.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEE--EEECCeEEEEEEEeCCCccccccc---hhhhhcCCcE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKT--LLVRGARISYSIWEVTGDAKAQDH---LPVACKDSIA  158 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~--~~~~~~~~~l~i~Dt~G~~~~~~~---~~~~~~~a~~  158 (268)
                      -+|+++|...+||||+-+-...+-- +  ..|.-..-..+.  -.+.+.-+.+++||.|||-.+-.-   ....++++-+
T Consensus        28 p~ilLMG~rRsGKsSI~KVVFhkMs-P--neTlflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gA  104 (347)
T KOG3887|consen   28 PRILLMGLRRSGKSSIQKVVFHKMS-P--NETLFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGA  104 (347)
T ss_pred             ceEEEEeecccCcchhhheeeeccC-C--CceeEeeccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCe
Confidence            4599999999999998765443321 1  111111111110  012335577999999999875332   3556899999


Q ss_pred             EEEEEeCCCh--hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchh----chHHHHHHHHHHh-----CCeEE
Q 041042          159 ILFMFDLTSR--CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQW----TIASQARAYAKAL-----NATLF  227 (268)
Q Consensus       159 vilv~D~~~~--~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~----~~~~~~~~~~~~~-----~~~~~  227 (268)
                      .|+|.|+.+.  +.+..+.......-+.+++.-.=|...|.|-   ++++-+.    .+.+...+-....     .+.|+
T Consensus       105 LifvIDaQddy~eala~L~~~v~raykvNp~in~EVfiHKvDG---Lsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~  181 (347)
T KOG3887|consen  105 LIFVIDAQDDYMEALARLHMTVERAYKVNPNINFEVFIHKVDG---LSDDFKIETQRDIHQRTNDELADAGLEKVQVSFY  181 (347)
T ss_pred             EEEEEechHHHHHHHHHHHHHhhheeecCCCceEEEEEEeccC---CchhhhhhhHHHHHHHhhHHHHhhhhccceEEEE
Confidence            9999998653  1222222222222222443333388999995   4544322    2222222222222     24466


Q ss_pred             EEcCCCCcCHHHHHHHHHHHHhcCccchhc
Q 041042          228 FSSATYNINVNKILKFITAKLFDIPWTLER  257 (268)
Q Consensus       228 ~~Sa~~~~~i~~~f~~l~~~i~~~~~~~~~  257 (268)
                      -+| ...+.|-|.|..+++++...-.+.|.
T Consensus       182 LTS-IyDHSIfEAFSkvVQkLipqLptLEn  210 (347)
T KOG3887|consen  182 LTS-IYDHSIFEAFSKVVQKLIPQLPTLEN  210 (347)
T ss_pred             Eee-ecchHHHHHHHHHHHHHhhhchhHHH
Confidence            666 45677999999999888877655554

>cd01858 NGP_1 NGP-1

Probab=98.49  E-value=7.7e-07  Score=70.13  Aligned_cols=89  Identities=16%  Similarity=0.210  Sum_probs=57.8

Q ss_pred             hhhcCCcEEEEEEeCCChhh--HHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEE
Q 041042          151 VACKDSIAILFMFDLTSRCT--LKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFF  228 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s--~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  228 (268)
                      ..++++|++++|.|+.++..  ...+.+++.   ....+.|+|+|.||+|+   ++.   ....+....+.+.+....+.
T Consensus         4 ~~l~~aD~il~VvD~~~p~~~~~~~i~~~l~---~~~~~~p~ilVlNKiDl---~~~---~~~~~~~~~~~~~~~~~~~~   74 (157)
T cd01858           4 KVIDSSDVVIQVLDARDPMGTRCKHVEEYLK---KEKPHKHLIFVLNKCDL---VPT---WVTARWVKILSKEYPTIAFH   74 (157)
T ss_pred             HhhhhCCEEEEEEECCCCccccCHHHHHHHH---hccCCCCEEEEEEchhc---CCH---HHHHHHHHHHhcCCcEEEEE
Confidence            34678999999999988632  233333333   22334677899999997   322   11223333343333333577


Q ss_pred             EcCCCCcCHHHHHHHHHHHH
Q 041042          229 SSATYNINVNKILKFITAKL  248 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      +||+++.|++++.+.+.+..
T Consensus        75 iSa~~~~~~~~L~~~l~~~~   94 (157)
T cd01858          75 ASINNPFGKGSLIQLLRQFS   94 (157)
T ss_pred             eeccccccHHHHHHHHHHHH
Confidence            99999999999999987653

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.

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=98.49  E-value=5.3e-07  Score=83.60  Aligned_cols=116  Identities=17%  Similarity=0.236  Sum_probs=79.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCC---------CCCCc------ceeeEEE--EEE---ECCeEEEEEEEeC
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQG---------GSPGE------GLNMMDK--TLL---VRGARISYSIWEV  139 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~---------~~~t~------~~~~~~~--~~~---~~~~~~~l~i~Dt  139 (268)
                      ......|.++|.-+.|||+|+..|.......-         |..+.      |......  ++.   ..++.+.+++.||
T Consensus       125 p~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDT  204 (971)
T KOG0468|consen  125 PERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDT  204 (971)
T ss_pred             cceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecC
Confidence            34457899999999999999999877543211         11111      1111111  111   2567788999999


Q ss_pred             CCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCC
Q 041042          140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDD  199 (268)
Q Consensus       140 ~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl  199 (268)
                      +|+-.|.......++-+|++++|+|+.+.-.+..-+ .+   ++...+. ++++|.||.|.
T Consensus       205 PGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr-~i---khaiq~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  205 PGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTER-II---KHAIQNRLPIVVVINKVDR  261 (971)
T ss_pred             CCcccchHHHHHHhhhcceEEEEEEcccCceeeHHH-HH---HHHHhccCcEEEEEehhHH
Confidence            999999988888999999999999998766654322 22   2222234 44699999994

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.46  E-value=4e-07  Score=76.50  Aligned_cols=162  Identities=14%  Similarity=0.156  Sum_probs=94.1

Q ss_pred             CCCCCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCC-CCCcceeeEEEEEEECCeEEEEEEEeCCC----------ccc
Q 041042           76 LDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGG-SPGEGLNMMDKTLLVRGARISYSIWEVTG----------DAK  144 (268)
Q Consensus        76 ~~~~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G----------~~~  144 (268)
                      .+.+......++++|.+||||||||+-++........ .++.|.+.....+.++   -.+.+.|.+|          .+.
T Consensus       129 ~D~Pk~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v~---~~~~~vDlPG~~~a~y~~~~~~d  205 (320)
T KOG2486|consen  129 EDCPKDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVG---KSWYEVDLPGYGRAGYGFELPAD  205 (320)
T ss_pred             ccCCCCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeecc---ceEEEEecCCcccccCCccCcch
Confidence            3444556789999999999999999999876532222 2244544333333333   2355788888          234


Q ss_pred             cccchhhhhcCCc---EEEEEEeCCChh--hHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhch---HHHH
Q 041042          145 AQDHLPVACKDSI---AILFMFDLTSRC--TLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTI---ASQA  215 (268)
Q Consensus       145 ~~~~~~~~~~~a~---~vilv~D~~~~~--s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~---~~~~  215 (268)
                      +..+...|+.+-+   -+++..|++.+-  .-.....|+.+      ..+| .+|.||||...+.........   ....
T Consensus       206 ~~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge------~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f  279 (320)
T KOG2486|consen  206 WDKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGE------NNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINF  279 (320)
T ss_pred             HhHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhh------cCCCeEEeeehhhhhhhccccccCccccceeeh
Confidence            4566777765543   444555654321  11223355544      4455 699999996533221111111   1112


Q ss_pred             HHH---HHHhCCeEEEEcCCCCcCHHHHHHHHHH
Q 041042          216 RAY---AKALNATLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       216 ~~~---~~~~~~~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                      ..+   +.....+++.+|+.++.|+++++..+..
T Consensus       280 ~~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  280 QGLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             hhccccceeccCCceeeecccccCceeeeeehhh
Confidence            222   2233457788999999999999877654

>cd01856 YlqF YlqF

Probab=98.45  E-value=5.2e-07  Score=72.17  Aligned_cols=57  Identities=11%  Similarity=0.197  Sum_probs=40.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD  142 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~  142 (268)
                      ..++++++|.+|||||||++++.+..+. ...+..+.++....+.++   ..+.+|||+|.
T Consensus       114 ~~~~~~~~G~~~vGKstlin~l~~~~~~-~~~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         114 RGIRAMVVGIPNVGKSTLINRLRGKKVA-KVGNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            3579999999999999999999987763 222223444444444444   34789999994

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.

>cd01859 MJ1464 MJ1464

Probab=98.45  E-value=5.9e-07  Score=70.62  Aligned_cols=55  Identities=18%  Similarity=0.364  Sum_probs=39.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG  141 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G  141 (268)
                      ..+++++|.+|+|||||++++.+.. ...+.++.|.+.....+..++   .+.+|||+|
T Consensus       101 ~~~~~~ig~~~~Gkssl~~~l~~~~-~~~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859         101 EGKVGVVGYPNVGKSSIINALKGRH-SASTSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC-ccccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            4789999999999999999998765 344555666554333233332   588999998

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.43  E-value=1.6e-06  Score=68.12  Aligned_cols=84  Identities=17%  Similarity=0.033  Sum_probs=54.6

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcC
Q 041042          157 IAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNIN  236 (268)
Q Consensus       157 ~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  236 (268)
                      |++++|+|+.++.+...  .|+........+.|+|+|.||+|+   ++.   ....+....+.+..+..++.+||++|.|
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~~~~~~~~~p~IiVlNK~Dl---~~~---~~~~~~~~~~~~~~~~~ii~vSa~~~~g   72 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIERVLIKEKGKKLILVLNKADL---VPK---EVLRKWLAYLRHSYPTIPFKISATNGQG   72 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHHHHHhcCCCCEEEEEechhc---CCH---HHHHHHHHHHHhhCCceEEEEeccCCcC
Confidence            68999999988765442  233311112235677899999997   222   1112222234334456788999999999


Q ss_pred             HHHHHHHHHHHH
Q 041042          237 VNKILKFITAKL  248 (268)
Q Consensus       237 i~~~f~~l~~~i  248 (268)
                      ++++++.+.+..
T Consensus        73 i~~L~~~i~~~~   84 (155)
T cd01849          73 IEKKESAFTKQT   84 (155)
T ss_pred             hhhHHHHHHHHh
Confidence            999999987654

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.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=98.41  E-value=3.3e-06  Score=75.14  Aligned_cols=134  Identities=10%  Similarity=0.108  Sum_probs=87.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhc--C--------------CCCCC----CCCCcceeeEEEEEEECCeEEEEEEEeCCC
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVG--D--------------EKEQG----GSPGEGLNMMDKTLLVRGARISYSIWEVTG  141 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~--~--------------~~~~~----~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G  141 (268)
                      ++-..+||-.|.+|||||..+++-  +              .+..+    ....-|....+..+.++.....+++.||||
T Consensus        11 rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTPG   90 (528)
T COG4108          11 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTPG   90 (528)
T ss_pred             hhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCCCC
Confidence            345688999999999999998742  1              11000    111135666666777777788899999999


Q ss_pred             ccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH
Q 041042          142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA  221 (268)
Q Consensus       142 ~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~  221 (268)
                      ++.|..-+...+..+|.+++|+|+...-.-+. .+.++-.+.  .+.|++=..||.|-       .-+...+-+.++.+.
T Consensus        91 HeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT-~KLfeVcrl--R~iPI~TFiNKlDR-------~~rdP~ELLdEiE~~  160 (528)
T COG4108          91 HEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQT-LKLFEVCRL--RDIPIFTFINKLDR-------EGRDPLELLDEIEEE  160 (528)
T ss_pred             ccccchhHHHHHHhhheeeEEEecccCccHHH-HHHHHHHhh--cCCceEEEeecccc-------ccCChHHHHHHHHHH
Confidence            99998888888889999999999875322111 111221111  13444578999994       223445555666666


Q ss_pred             hCCe
Q 041042          222 LNAT  225 (268)
Q Consensus       222 ~~~~  225 (268)
                      +++.
T Consensus       161 L~i~  164 (528)
T COG4108         161 LGIQ  164 (528)
T ss_pred             hCcc
Confidence            6644

>PRK13796 GTPase YqeH; Provisional

Probab=98.38  E-value=1.5e-06  Score=77.89  Aligned_cols=95  Identities=19%  Similarity=0.195  Sum_probs=63.3

Q ss_pred             ccccchhhhhcCCc-EEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc-hhchHHHHHHHHHH
Q 041042          144 KAQDHLPVACKDSI-AILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL-QWTIASQARAYAKA  221 (268)
Q Consensus       144 ~~~~~~~~~~~~a~-~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~  221 (268)
                      .|..+.... ..++ .+++|+|+.|..     ..|...+.+...+.++++|+||+||   ++.+. .....+....+++.
T Consensus        58 ~~~~~l~~i-~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~~~kpviLViNK~DL---l~~~~~~~~i~~~l~~~~k~  128 (365)
T PRK13796         58 DFLKLLNGI-GDSDALVVNVVDIFDFN-----GSWIPGLHRFVGNNPVLLVGNKADL---LPKSVKKNKVKNWLRQEAKE  128 (365)
T ss_pred             HHHHHHHhh-cccCcEEEEEEECccCC-----CchhHHHHHHhCCCCEEEEEEchhh---CCCccCHHHHHHHHHHHHHh
Confidence            344433333 3444 899999987743     3456666665556677899999998   33221 11223344455667


Q ss_pred             hCC---eEEEEcCCCCcCHHHHHHHHHHH
Q 041042          222 LNA---TLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       222 ~~~---~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      .|+   .++.+||++|.|++++++.+.+.
T Consensus       129 ~g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        129 LGLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             cCCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            776   57899999999999999999765

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.38  E-value=6.7e-06  Score=72.16  Aligned_cols=158  Identities=15%  Similarity=0.144  Sum_probs=97.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCc------------ce--eeEEEEEEECC----------------
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE------------GL--NMMDKTLLVRG----------------  129 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~------------~~--~~~~~~~~~~~----------------  129 (268)
                      ....+-|.+.|.-+.|||||+-.|+.+..++..-.|-            |.  +..-..+-+++                
T Consensus       114 ~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~~  193 (527)
T COG5258         114 APEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEKA  193 (527)
T ss_pred             CCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHHh
Confidence            5557899999999999999998887655433221110            10  11111122221                


Q ss_pred             -----eEEEEEEEeCCCcccccc--chhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCC
Q 041042          130 -----ARISYSIWEVTGDAKAQD--HLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQ  202 (268)
Q Consensus       130 -----~~~~l~i~Dt~G~~~~~~--~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~  202 (268)
                           ..-.+.+.||.|+|.|-.  +.-.+=...|-.+++..++|.-+--. ++-+-.+.  .-.-|.|+|.||+|+   
T Consensus       194 ~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~t-kEHLgi~~--a~~lPviVvvTK~D~---  267 (527)
T COG5258         194 AVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMT-KEHLGIAL--AMELPVIVVVTKIDM---  267 (527)
T ss_pred             HhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhh-hHhhhhhh--hhcCCEEEEEEeccc---
Confidence                 112467899999999843  33344467899999998877543211 11111111  114456799999998   


Q ss_pred             CCccchhchHHHHHHHHHHhC-------------------------CeEEEEcCCCCcCHHHHHHH
Q 041042          203 LPIDLQWTIASQARAYAKALN-------------------------ATLFFSSATYNINVNKILKF  243 (268)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~-------------------------~~~~~~Sa~~~~~i~~~f~~  243 (268)
                      .++++.+.+.+++..+.+..+                         +|+|++|+.+|+|++-+.+.
T Consensus       268 ~~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~  333 (527)
T COG5258         268 VPDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEF  333 (527)
T ss_pred             CcHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHH
Confidence            677666666666666654332                         47899999999998754443

>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=98.36  E-value=1.2e-06  Score=73.59  Aligned_cols=96  Identities=11%  Similarity=0.092  Sum_probs=55.8

Q ss_pred             EEEEEeCCC--ccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhc
Q 041042          133 SYSIWEVTG--DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWT  210 (268)
Q Consensus       133 ~l~i~Dt~G--~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~  210 (268)
                      .+.|.+|.|  |.+.     ....-+|.+++|.-..-.+..+.++.=+-++       .-|+|.||+|+    +..  ..
T Consensus       123 D~IiiETVGvGQsE~-----~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEi-------aDi~vVNKaD~----~gA--~~  184 (266)
T PF03308_consen  123 DVIIIETVGVGQSEV-----DIADMADTVVLVLVPGLGDEIQAIKAGIMEI-------ADIFVVNKADR----PGA--DR  184 (266)
T ss_dssp             SEEEEEEESSSTHHH-----HHHTTSSEEEEEEESSTCCCCCTB-TTHHHH--------SEEEEE--SH----HHH--HH
T ss_pred             CEEEEeCCCCCccHH-----HHHHhcCeEEEEecCCCccHHHHHhhhhhhh-------ccEEEEeCCCh----HHH--HH
Confidence            356677765  3331     1245689999999876656555444322222       23899999994    221  22


Q ss_pred             hHHHHHHHHHH-------hCCeEEEEcCCCCcCHHHHHHHHHH
Q 041042          211 IASQARAYAKA-------LNATLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       211 ~~~~~~~~~~~-------~~~~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                      ...+.+.....       +..+.+.|||.++.||+++++.|.+
T Consensus       185 ~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~  227 (266)
T PF03308_consen  185 TVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDE  227 (266)
T ss_dssp             HHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            22222222221       2247899999999999999999875

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.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.34  E-value=1.3e-06  Score=70.00  Aligned_cols=54  Identities=15%  Similarity=0.381  Sum_probs=38.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG  141 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G  141 (268)
                      .++++++|.+|||||||+|++.+... .....|  |.+.....+.++.   .+.++||||
T Consensus       117 ~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~p--g~T~~~~~~~~~~---~~~l~DtPG  171 (172)
T cd04178         117 SITVGVVGFPNVGKSSLINSLKRSRACNVGATP--GVTKSMQEVHLDK---KVKLLDSPG  171 (172)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCcccceecCCC--CeEcceEEEEeCC---CEEEEECcC
Confidence            48999999999999999999998653 333333  4444333444432   477999998

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

>cd01858 NGP_1 NGP-1

Probab=98.34  E-value=1.6e-06  Score=68.23  Aligned_cols=54  Identities=13%  Similarity=0.274  Sum_probs=35.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG  141 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G  141 (268)
                      .++|+++|.+|||||||+|++.+... .....+  |.+.....+..+.   .+.+.||||
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~~~~~~~~~--g~T~~~~~~~~~~---~~~liDtPG  156 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKKVCKVAPIP--GETKVWQYITLMK---RIYLIDCPG  156 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCCceeeCCCC--CeeEeEEEEEcCC---CEEEEECcC
Confidence            47899999999999999999988653 222222  3332222233222   256899998

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.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=98.29  E-value=5.2e-06  Score=70.43  Aligned_cols=163  Identities=12%  Similarity=0.139  Sum_probs=101.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcC----------CCCC----CCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGD----------EKEQ----GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~----------~~~~----~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      ....++|..+|.-.-|||||...+..-          .|.+    .....-|.+.....+.+...+-.+-..|++|+..|
T Consensus         9 ~kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPGHaDY   88 (394)
T COG0050           9 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHADY   88 (394)
T ss_pred             CCCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCChHHH
Confidence            344689999999999999998877431          1111    11112355666666666666666788999999888


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChh---hHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCcc-chhchHHHHHHHHH
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRC---TLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPID-LQWTIASQARAYAK  220 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~---s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~-~~~~~~~~~~~~~~  220 (268)
                      -...-.-....|+.|||+.++|..   +-+.+-    ..++  -..|- +++.||+|+   ..+. ....+..+++++..
T Consensus        89 vKNMItgAaqmDgAILVVsA~dGpmPqTrEHiL----larq--vGvp~ivvflnK~Dm---vdd~ellelVemEvreLLs  159 (394)
T COG0050          89 VKNMITGAAQMDGAILVVAATDGPMPQTREHIL----LARQ--VGVPYIVVFLNKVDM---VDDEELLELVEMEVRELLS  159 (394)
T ss_pred             HHHHhhhHHhcCccEEEEEcCCCCCCcchhhhh----hhhh--cCCcEEEEEEecccc---cCcHHHHHHHHHHHHHHHH
Confidence            433222334679999999988743   333221    1111  13444 488999998   4432 23344778899999


Q ss_pred             HhCCe-----EEEEcCCCC--------cCHHHHHHHHHHHHhcC
Q 041042          221 ALNAT-----LFFSSATYN--------INVNKILKFITAKLFDI  251 (268)
Q Consensus       221 ~~~~~-----~~~~Sa~~~--------~~i~~~f~~l~~~i~~~  251 (268)
                      +++++     ++.-||..-        ..|.++++.+-..+...
T Consensus       160 ~y~f~gd~~Pii~gSal~ale~~~~~~~~i~eLm~avd~yip~P  203 (394)
T COG0050         160 EYGFPGDDTPIIRGSALKALEGDAKWEAKIEELMDAVDSYIPTP  203 (394)
T ss_pred             HcCCCCCCcceeechhhhhhcCCcchHHHHHHHHHHHHhcCCCC
Confidence            99864     666665421        12556665555554443

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.25  E-value=3e-06  Score=73.13  Aligned_cols=56  Identities=13%  Similarity=0.345  Sum_probs=39.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD  142 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~  142 (268)
                      ..++++++|.+|||||||+|++.+... .....  .|.+.....+.++.   .+.++||||.
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~~--~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNR--PGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCccccCCC--CCeecceEEEEeCC---CEEEEECCCc
Confidence            358999999999999999999998763 22222  24444444444432   3689999996

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.22  E-value=4.5e-06  Score=72.40  Aligned_cols=57  Identities=16%  Similarity=0.408  Sum_probs=40.4

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA  143 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~  143 (268)
                      ..++++++|.+|||||||+|++.+... .....+  |.+.....+.+++   .+.++||||-.
T Consensus       120 ~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~--g~T~~~~~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        120 RAIRAMIIGIPNVGKSTLINRLAGKKIAKTGNRP--GVTKAQQWIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCccccCCCC--CeEEEEEEEEeCC---cEEEEECCCcC
Confidence            358999999999999999999998764 233333  4444434444443   36799999963

>cd01856 YlqF YlqF

Probab=98.22  E-value=4.1e-06  Score=66.94  Aligned_cols=92  Identities=15%  Similarity=0.016  Sum_probs=60.0

Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT  225 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (268)
                      .......+.+||.+++|+|++++..-.. ..+.+.+    .+.++++|.||+|+   .+.   ... ....++.+..+..
T Consensus        10 ~~~~~~~i~~aD~il~v~D~~~~~~~~~-~~i~~~~----~~k~~ilVlNK~Dl---~~~---~~~-~~~~~~~~~~~~~   77 (171)
T cd01856          10 LRQIKEKLKLVDLVIEVRDARIPLSSRN-PLLEKIL----GNKPRIIVLNKADL---ADP---KKT-KKWLKYFESKGEK   77 (171)
T ss_pred             HHHHHHHHhhCCEEEEEeeccCccCcCC-hhhHhHh----cCCCEEEEEehhhc---CCh---HHH-HHHHHHHHhcCCe
Confidence            3344667889999999999987643221 1122221    24567899999997   221   111 1121233334567


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          226 LFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      ++.+||+++.|++++.+.+...+.
T Consensus        78 vi~iSa~~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          78 VLFVNAKSGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             EEEEECCCcccHHHHHHHHHHHHH
Confidence            899999999999999999988753

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=98.21  E-value=1.5e-05  Score=68.10  Aligned_cols=104  Identities=13%  Similarity=0.020  Sum_probs=58.6

Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI  211 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~  211 (268)
                      +.+.|.+|.|--+-.   -....-+|.+++|.=..-.+..+-++.=+-++       --|+|.||.|.    ........
T Consensus       144 ~DvIIVETVGvGQse---v~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEi-------aDi~vINKaD~----~~A~~a~r  209 (323)
T COG1703         144 YDVIIVETVGVGQSE---VDIANMADTFLVVMIPGAGDDLQGIKAGIMEI-------ADIIVINKADR----KGAEKAAR  209 (323)
T ss_pred             CCEEEEEecCCCcch---hHHhhhcceEEEEecCCCCcHHHHHHhhhhhh-------hheeeEeccCh----hhHHHHHH
Confidence            346677777632211   11234678888887655555555544322222       23899999994    22111111


Q ss_pred             -HHHHHHHHH------HhCCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          212 -ASQARAYAK------ALNATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       212 -~~~~~~~~~------~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                       ...+.++..      .+.-+.+.|||.+|+|++++++.+.+...
T Consensus       210 ~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~  254 (323)
T COG1703         210 ELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRK  254 (323)
T ss_pred             HHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHH
Confidence             111111111      12346899999999999999999876443

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.20  E-value=6.5e-06  Score=63.64  Aligned_cols=76  Identities=16%  Similarity=0.105  Sum_probs=52.3

Q ss_pred             hhhcCCcEEEEEEeCCChhhHH--HHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEE
Q 041042          151 VACKDSIAILFMFDLTSRCTLK--SVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFF  228 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~--~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  228 (268)
                      ..+..+|++++|+|+.++.+..  .+.+|+...   ..+.++++|.||+|+   .++   . ...+..++.+..+..+++
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~~~k~~iivlNK~DL---~~~---~-~~~~~~~~~~~~~~~ii~   76 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRPPDLERYVKEV---DPRKKNILLLNKADL---LTE---E-QRKAWAEYFKKEGIVVVF   76 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc---cCCCcEEEEEechhc---CCH---H-HHHHHHHHHHhcCCeEEE
Confidence            4578899999999998876544  444555433   245677899999997   222   1 123444556666788999


Q ss_pred             EcCCCCcC
Q 041042          229 SSATYNIN  236 (268)
Q Consensus       229 ~Sa~~~~~  236 (268)
                      +||+++.+
T Consensus        77 iSa~~~~~   84 (141)
T cd01857          77 FSALKENA   84 (141)
T ss_pred             EEecCCCc
Confidence            99998764

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.

>cd01855 YqeH YqeH

Probab=98.19  E-value=2.9e-06  Score=68.97  Aligned_cols=53  Identities=11%  Similarity=0.343  Sum_probs=36.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC---------CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK---------EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG  141 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~---------~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G  141 (268)
                      ..++++|.+|||||||+|.+.+...         .....+  |.+.....+.++.   .+.++||||
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~--gtT~~~~~~~~~~---~~~~~DtPG  189 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIP--GTTLDLIKIPLGN---GKKLYDTPG  189 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCC--CeeeeeEEEecCC---CCEEEeCcC
Confidence            5899999999999999999987542         122222  3344444444443   368999998

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.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.16  E-value=1.2e-05  Score=70.19  Aligned_cols=111  Identities=18%  Similarity=0.182  Sum_probs=71.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCC---CCCCcceeeEEEEEE------ECCeE-----------------------
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQG---GSPGEGLNMMDKTLL------VRGAR-----------------------  131 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~---~~~t~~~~~~~~~~~------~~~~~-----------------------  131 (268)
                      -=|+++|.-..||||+|+-++...|..-   ..||+  ++....+.      ++|..                       
T Consensus        59 Pmill~GqyStGKTtfi~yLle~dypg~riGpEPTt--d~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnRf  136 (532)
T KOG1954|consen   59 PMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTT--DRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNRF  136 (532)
T ss_pred             ceEEEEeccccchhHHHHHHHhCCCCccccCCCCCc--ceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHHH
Confidence            4589999999999999999999887542   22332  22211111      11111                       


Q ss_pred             ----------EEEEEEeCCCcc-----------ccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce
Q 041042          132 ----------ISYSIWEVTGDA-----------KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP  190 (268)
Q Consensus       132 ----------~~l~i~Dt~G~~-----------~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~  190 (268)
                                -.+.|.||+|.-           .|....+-|...+|.+|++||....+--++....+..++-   ..--
T Consensus       137 ~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG---~Edk  213 (532)
T KOG1954|consen  137 MCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKG---HEDK  213 (532)
T ss_pred             HHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhC---Ccce
Confidence                      147799999932           2445567778999999999998665543444444444433   2233


Q ss_pred             E-EEEeCCCC
Q 041042          191 I-IIGTKFDD  199 (268)
Q Consensus       191 i-lvgnK~Dl  199 (268)
                      | ||.||.|.
T Consensus       214 iRVVLNKADq  223 (532)
T KOG1954|consen  214 IRVVLNKADQ  223 (532)
T ss_pred             eEEEeccccc
Confidence            5 99999995

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.15  E-value=2.2e-05  Score=68.74  Aligned_cols=161  Identities=14%  Similarity=0.169  Sum_probs=91.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCC-----------------------CCCCcceeeEEEEEEEC--------
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQG-----------------------GSPGEGLNMMDKTLLVR--------  128 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~-----------------------~~~t~~~~~~~~~~~~~--------  128 (268)
                      .-.+++++++|...+|||||+--+..++.+..                       ...++|.+...+.+.+.        
T Consensus       164 qfievRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi  243 (591)
T KOG1143|consen  164 QFIEVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEI  243 (591)
T ss_pred             cceEEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHH
Confidence            56689999999999999999987765443221                       11123444333333332        


Q ss_pred             --CeEEEEEEEeCCCccccccchhhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCC
Q 041042          129 --GARISYSIWEVTGDAKAQDHLPVACK--DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLP  204 (268)
Q Consensus       129 --~~~~~l~i~Dt~G~~~~~~~~~~~~~--~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~  204 (268)
                        .....+.++|.+|+.+|....-+-+.  ..|..++|+++.....+.. ++-+..+...  +.|.+|+.+|.||.....
T Consensus       244 ~e~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT-rEHLgl~~AL--~iPfFvlvtK~Dl~~~~~  320 (591)
T KOG1143|consen  244 VEKSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT-REHLGLIAAL--NIPFFVLVTKMDLVDRQG  320 (591)
T ss_pred             HhhhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc-HHHHHHHHHh--CCCeEEEEEeeccccchh
Confidence              12235779999999998655433322  3577788887765444322 2222233222  445579999999742100


Q ss_pred             cc------------------chhch-HHHH----HHHHHHhCCeEEEEcCCCCcCHHHHHHH
Q 041042          205 ID------------------LQWTI-ASQA----RAYAKALNATLFFSSATYNINVNKILKF  243 (268)
Q Consensus       205 ~~------------------~~~~~-~~~~----~~~~~~~~~~~~~~Sa~~~~~i~~~f~~  243 (268)
                      -+                  ...+. ..++    ++.+...-.|+|.+|+.+|+|++-+...
T Consensus       321 ~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~~f  382 (591)
T KOG1143|consen  321 LKKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLRTF  382 (591)
T ss_pred             HHHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHHHH
Confidence            00                  00011 2222    2222222357899999999998765433

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.15  E-value=5e-06  Score=73.24  Aligned_cols=56  Identities=13%  Similarity=0.342  Sum_probs=41.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD  142 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~  142 (268)
                      ..+++.++|-||||||||||+|.+... .....|  |.+-....+.++..   +.++||||-
T Consensus       131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~P--G~Tk~~q~i~~~~~---i~LlDtPGi  187 (322)
T COG1161         131 RKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRP--GTTKGIQWIKLDDG---IYLLDTPGI  187 (322)
T ss_pred             cceEEEEEcCCCCcHHHHHHHHhcccceeeCCCC--ceecceEEEEcCCC---eEEecCCCc
Confidence            347899999999999999999999864 223333  55555555555543   779999994

>TIGR00092 GTP-binding protein YchF

Probab=98.13  E-value=1.1e-05  Score=71.76  Aligned_cols=83  Identities=10%  Similarity=0.054  Sum_probs=55.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCe---------------EEEEEEEeCCCcccc--
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGA---------------RISYSIWEVTGDAKA--  145 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~l~i~Dt~G~~~~--  145 (268)
                      +|+.|+|.||||||||++.+++... ...+.|-...+-....+.+.+.               ...+++.|.||.-.-  
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            7999999999999999999998865 4333332212222334444432               236789999995432  


Q ss_pred             --ccchhh---hhcCCcEEEEEEeCC
Q 041042          146 --QDHLPV---ACKDSIAILFMFDLT  166 (268)
Q Consensus       146 --~~~~~~---~~~~a~~vilv~D~~  166 (268)
                        ..+...   .++.+|+++.|+|..
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence              223333   368899999999974

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.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.12  E-value=1.7e-05  Score=81.13  Aligned_cols=109  Identities=16%  Similarity=0.120  Sum_probs=64.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcCCCCCCC------CCCcceeeEEEEEEECCeEEEEEEEeCCCcc--------ccccchhh
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDEKEQGG------SPGEGLNMMDKTLLVRGARISYSIWEVTGDA--------KAQDHLPV  151 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~~~~~~------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~--------~~~~~~~~  151 (268)
                      .+|||++|+||||+|++- +-.|.-..      ..+++.+.. ...-+.+   .-.++||+|..        .....|..
T Consensus       114 YlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~-c~wwf~~---~avliDtaG~y~~~~~~~~~~~~~W~~  188 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRN-CDWWFTD---EAVLIDTAGRYTTQDSDPEEDAAAWLG  188 (1169)
T ss_pred             EEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcc-cceEecC---CEEEEcCCCccccCCCcccccHHHHHH
Confidence            689999999999999986 33332211      111221111 1111122   24489999921        22233444


Q ss_pred             hh---------cCCcEEEEEEeCCChhh-----H----HHHHHHHHHHHHhCCCCceE-EEEeCCCC
Q 041042          152 AC---------KDSIAILFMFDLTSRCT-----L----KSVIRWYQQARKCNQTAIPI-IIGTKFDD  199 (268)
Q Consensus       152 ~~---------~~a~~vilv~D~~~~~s-----~----~~~~~~~~~i~~~~~~~~~i-lvgnK~Dl  199 (268)
                      ++         +..|+||+++|+.+.-+     .    ..++..++++.+.-.-..|| ||.||+|+
T Consensus       189 fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dl  255 (1169)
T TIGR03348       189 FLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADL  255 (1169)
T ss_pred             HHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchh
Confidence            43         35799999999765321     1    24445666666665555555 99999998

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.09  E-value=6.3e-05  Score=70.46  Aligned_cols=114  Identities=11%  Similarity=0.251  Sum_probs=68.5

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCC-CCCCcceeeEE-------------------------------------
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQG-GSPGEGLNMMD-------------------------------------  122 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~-~~~t~~~~~~~-------------------------------------  122 (268)
                      ....||++.|+.+.||||++|.++.++.-+. ..+++. -|..                                     
T Consensus       107 r~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~Tn-cF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~  185 (749)
T KOG0448|consen  107 RRHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTN-CFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKD  185 (749)
T ss_pred             hcccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccce-eeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCcccc
Confidence            3468999999999999999999987543221 111110 0000                                     


Q ss_pred             ------EEEEECCeEE-----EEEEEeCCCcc---ccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCC
Q 041042          123 ------KTLLVRGARI-----SYSIWEVTGDA---KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA  188 (268)
Q Consensus       123 ------~~~~~~~~~~-----~l~i~Dt~G~~---~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~  188 (268)
                            -.+.++....     .+.+.|.+|-.   ...+-...++.++|++|+|..+.+.-+..+- .++..+.+   ..
T Consensus       186 ~~~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek-~Ff~~vs~---~K  261 (749)
T KOG0448|consen  186 LGAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEK-QFFHKVSE---EK  261 (749)
T ss_pred             cCcceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHH-HHHHHhhc---cC
Confidence                  0111111111     25577888843   3344556778999999999998776655442 33333322   34


Q ss_pred             ceE-EEEeCCCC
Q 041042          189 IPI-IIGTKFDD  199 (268)
Q Consensus       189 ~~i-lvgnK~Dl  199 (268)
                      |-| |+-||+|.
T Consensus       262 pniFIlnnkwDa  273 (749)
T KOG0448|consen  262 PNIFILNNKWDA  273 (749)
T ss_pred             CcEEEEechhhh
Confidence            445 89999996

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.05  E-value=1.7e-05  Score=68.58  Aligned_cols=85  Identities=15%  Similarity=0.196  Sum_probs=58.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC---------------CeEEEEEEEeCCCccc--
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR---------------GARISYSIWEVTGDAK--  144 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~---------------~~~~~l~i~Dt~G~~~--  144 (268)
                      ..+|+-++|.||||||||+|.+.+........|-...+-..-.+.+.               .....++++|++|.-+  
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGA   98 (391)
T KOG1491|consen   19 NNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGA   98 (391)
T ss_pred             CcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCc
Confidence            45899999999999999999999987666655532223222233331               1346799999998543  


Q ss_pred             --cccchhhh---hcCCcEEEEEEeCC
Q 041042          145 --AQDHLPVA---CKDSIAILFMFDLT  166 (268)
Q Consensus       145 --~~~~~~~~---~~~a~~vilv~D~~  166 (268)
                        -..+-..|   ++.+|+++-|+++.
T Consensus        99 s~G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   99 SAGEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             ccCcCchHHHHHhhhhccceeEEEEec
Confidence              23444555   57899999888764

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.03  E-value=2.7e-05  Score=67.22  Aligned_cols=91  Identities=14%  Similarity=0.027  Sum_probs=59.6

Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEE
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFF  228 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  228 (268)
                      ....++.+|++++|.|+.++.+-.+  .++....   .+.+.|+|.||+||   .+.   ..... ..++.+..+.+++.
T Consensus        15 ~~~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l---~~kp~IiVlNK~DL---~~~---~~~~~-~~~~~~~~~~~vi~   82 (276)
T TIGR03596        15 IKEKLKLVDVVIEVLDARIPLSSRN--PMIDEIR---GNKPRLIVLNKADL---ADP---AVTKQ-WLKYFEEKGIKALA   82 (276)
T ss_pred             HHHHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH---CCCCEEEEEEcccc---CCH---HHHHH-HHHHHHHcCCeEEE
Confidence            4556789999999999977644322  1122221   24566899999997   221   11111 11222335678899


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhcC
Q 041042          229 SSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      +||+++.|++++.+.+.+.+.+.
T Consensus        83 iSa~~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        83 INAKKGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             EECCCcccHHHHHHHHHHHHHHh
Confidence            99999999999999988776543

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.

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=97.94  E-value=4.8e-05  Score=63.61  Aligned_cols=86  Identities=15%  Similarity=0.127  Sum_probs=52.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC--CCCCC---CCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc------chhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD--EKEQG---GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD------HLPV  151 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~--~~~~~---~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~------~~~~  151 (268)
                      ..-|.|+|.+++|||+|+|++.+.  .|...   ...|.|+-.....+. .+....+.++||+|......      ..-.
T Consensus         7 v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~-~~~~~~v~~lDteG~~~~~~~~~~~~~~~~   85 (224)
T cd01851           7 VAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFK-LGKEHAVLLLDTEGTDGRERGEFEDDARLF   85 (224)
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEecccc-CCCcceEEEEecCCcCccccCchhhhhHHH
Confidence            356789999999999999999998  66432   223445433322221 13456789999999654221      1112


Q ss_pred             hhcC--CcEEEEEEeCCChh
Q 041042          152 ACKD--SIAILFMFDLTSRC  169 (268)
Q Consensus       152 ~~~~--a~~vilv~D~~~~~  169 (268)
                      .+..  ++++|+..+.....
T Consensus        86 ~l~~llss~~i~n~~~~~~~  105 (224)
T cd01851          86 ALATLLSSVLIYNSWETILG  105 (224)
T ss_pred             HHHHHHhCEEEEeccCcccH
Confidence            2223  77888777765443

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.91  E-value=2.7e-05  Score=61.16  Aligned_cols=55  Identities=16%  Similarity=0.388  Sum_probs=36.3

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG  141 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G  141 (268)
                      ....++++|.+|||||||+|.+.+... .....+.+.  .....+..+   ..+.+.||||
T Consensus        99 ~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t--~~~~~~~~~---~~~~liDtPG  154 (155)
T cd01849          99 KSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTT--TSQQEVKLD---NKIKLLDTPG  154 (155)
T ss_pred             cCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcc--cceEEEEec---CCEEEEECCC
Confidence            357899999999999999999998652 222222222  222223332   2478999998

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.89  E-value=4.1e-05  Score=67.30  Aligned_cols=93  Identities=18%  Similarity=0.203  Sum_probs=55.6

Q ss_pred             EEEEEEEeCCCccccccc----hhhh--------hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCC
Q 041042          131 RISYSIWEVTGDAKAQDH----LPVA--------CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKF  197 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~~----~~~~--------~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~  197 (268)
                      .+.+.+.||+|.......    ...+        -...+..++|.|++...  +.+..    +..+.....+ -+|.||.
T Consensus       196 ~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~--~~~~~----a~~f~~~~~~~giIlTKl  269 (318)
T PRK10416        196 GIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ--NALSQ----AKAFHEAVGLTGIILTKL  269 (318)
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCCh--HHHHH----HHHHHhhCCCCEEEEECC
Confidence            356889999996432211    1111        12467889999987432  22221    2222112233 5999999


Q ss_pred             CCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          198 DDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       198 Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      |..      .+   .-.+..++...++|+..++  +|++++++
T Consensus       270 D~t------~~---~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl  301 (318)
T PRK10416        270 DGT------AK---GGVVFAIADELGIPIKFIG--VGEGIDDL  301 (318)
T ss_pred             CCC------CC---ccHHHHHHHHHCCCEEEEe--CCCChhhC
Confidence            941      11   2345566777899999988  88888776

>PRK01889 GTPase RsgA; Reviewed

Probab=97.89  E-value=8.3e-05  Score=66.48  Aligned_cols=85  Identities=16%  Similarity=0.175  Sum_probs=59.4

Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcC
Q 041042          152 ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSA  231 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  231 (268)
                      ...++|.+++|+++...-....+.+++..+...  +.+|+||.||+||   .++  .....+....+  ..+.+++.+|+
T Consensus       109 iaANvD~vliV~s~~p~~~~~~ldr~L~~a~~~--~i~piIVLNK~DL---~~~--~~~~~~~~~~~--~~g~~Vi~vSa  179 (356)
T PRK01889        109 IAANVDTVFIVCSLNHDFNLRRIERYLALAWES--GAEPVIVLTKADL---CED--AEEKIAEVEAL--APGVPVLAVSA  179 (356)
T ss_pred             EEEeCCEEEEEEecCCCCChhHHHHHHHHHHHc--CCCEEEEEEChhc---CCC--HHHHHHHHHHh--CCCCcEEEEEC
Confidence            357899999999996544555666766665543  5577999999998   322  11112223333  45788999999


Q ss_pred             CCCcCHHHHHHHHH
Q 041042          232 TYNINVNKILKFIT  245 (268)
Q Consensus       232 ~~~~~i~~~f~~l~  245 (268)
                      ++|.|++++..++.
T Consensus       180 ~~g~gl~~L~~~L~  193 (356)
T PRK01889        180 LDGEGLDVLAAWLS  193 (356)
T ss_pred             CCCccHHHHHHHhh
Confidence            99999999988874

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.86  E-value=7.8e-05  Score=64.69  Aligned_cols=91  Identities=14%  Similarity=0.004  Sum_probs=59.9

Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEE
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFF  228 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  228 (268)
                      ....+..+|++|+|+|+.++.+.++  .++....   .+.+.++|.||+||   .+.   ... +...++.++.+.+++.
T Consensus        18 l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~---~~kp~iiVlNK~DL---~~~---~~~-~~~~~~~~~~~~~vi~   85 (287)
T PRK09563         18 IKENLKLVDVVIEVLDARIPLSSEN--PMIDKII---GNKPRLLILNKSDL---ADP---EVT-KKWIEYFEEQGIKALA   85 (287)
T ss_pred             HHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh---CCCCEEEEEEchhc---CCH---HHH-HHHHHHHHHcCCeEEE
Confidence            4556789999999999977654322  1222222   24566899999997   221   111 1222223344678899


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhcC
Q 041042          229 SSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      +||+++.|++++.+.+.+.+.+.
T Consensus        86 vSa~~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         86 INAKKGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             EECCCcccHHHHHHHHHHHHHHH
Confidence            99999999999999887776443

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.85  E-value=5.9e-05  Score=63.66  Aligned_cols=60  Identities=18%  Similarity=0.333  Sum_probs=46.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCC----CCCCcceeeEEEEEEECCeEEEEEEEeCCC
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQG----GSPGEGLNMMDKTLLVRGARISYSIWEVTG  141 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~----~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G  141 (268)
                      -.+.|+.+|..|.|||||+..+.+-.|...    ..|++.....++.+.-.+..+++.+.||.|
T Consensus        41 F~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG  104 (406)
T KOG3859|consen   41 FCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG  104 (406)
T ss_pred             ceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence            369999999999999999999998876443    444555444445555567788999999998

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=97.83  E-value=2.1e-05  Score=61.96  Aligned_cols=23  Identities=26%  Similarity=0.527  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      -++++|.+|||||||+|.+....
T Consensus        37 ~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   37 TSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            68899999999999999998863

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=97.81  E-value=0.0002  Score=62.22  Aligned_cols=150  Identities=11%  Similarity=0.097  Sum_probs=91.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhc-------CC---CCC----CCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVG-------DE---KEQ----GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~-------~~---~~~----~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      +...++|--||.-.-|||||...+..       .+   |.+    .....-|.+.....+.+....-.+-=.|++|+.+|
T Consensus        51 ~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHADY  130 (449)
T KOG0460|consen   51 DKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHADY  130 (449)
T ss_pred             CCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchHHH
Confidence            44568999999999999999877643       11   110    01112355566666666665556667899999887


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccch-hchHHHHHHHHHHhC
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQ-WTIASQARAYAKALN  223 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~-~~~~~~~~~~~~~~~  223 (268)
                      -...-.--...|+.|+|+..+|..=-+ .++-+-..++.  ..+- +|..||.|+   .++... +-++-+++++..++|
T Consensus       131 IKNMItGaaqMDGaILVVaatDG~MPQ-TrEHlLLArQV--GV~~ivvfiNKvD~---V~d~e~leLVEmE~RElLse~g  204 (449)
T KOG0460|consen  131 IKNMITGAAQMDGAILVVAATDGPMPQ-TREHLLLARQV--GVKHIVVFINKVDL---VDDPEMLELVEMEIRELLSEFG  204 (449)
T ss_pred             HHHhhcCccccCceEEEEEcCCCCCcc-hHHHHHHHHHc--CCceEEEEEecccc---cCCHHHHHHHHHHHHHHHHHcC
Confidence            432222234569999999998853211 11112222221  3333 477899997   533333 333677888999887


Q ss_pred             C-----eEEEEc---CCCCc
Q 041042          224 A-----TLFFSS---ATYNI  235 (268)
Q Consensus       224 ~-----~~~~~S---a~~~~  235 (268)
                      +     |++.=|   |+.|.
T Consensus       205 f~Gd~~PvI~GSAL~ALeg~  224 (449)
T KOG0460|consen  205 FDGDNTPVIRGSALCALEGR  224 (449)
T ss_pred             CCCCCCCeeecchhhhhcCC
Confidence            4     677755   45553

>PRK12288 GTPase RsgA; Reviewed

Probab=97.81  E-value=5.1e-05  Score=67.48  Aligned_cols=58  Identities=12%  Similarity=0.196  Sum_probs=35.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcCCC-CCCCCCC---cc--eeeEEEEEEECCeEEEEEEEeCCCccccc
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDEK-EQGGSPG---EG--LNMMDKTLLVRGARISYSIWEVTGDAKAQ  146 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t---~~--~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~  146 (268)
                      ++++|.+|||||||||+|.+... .....+.   -|  .+....-+.+++.   ..++||||...+.
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~---~~liDTPGir~~~  271 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHG---GDLIDSPGVREFG  271 (347)
T ss_pred             EEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCC---CEEEECCCCCccc
Confidence            78999999999999999987642 2211111   11  1222223344322   2489999976643

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=97.81  E-value=0.00023  Score=62.59  Aligned_cols=29  Identities=14%  Similarity=0.465  Sum_probs=23.9

Q ss_pred             CCCCceeEEEEEEcCCCChHHHHHHHHhc
Q 041042           77 DADNLVALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        77 ~~~~~~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...+..+.+|+++|.-.+|||||+--+..
T Consensus       127 ~~~DF~E~RVAVVGNVDAGKSTLLGVLTH  155 (641)
T KOG0463|consen  127 TEKDFIEARVAVVGNVDAGKSTLLGVLTH  155 (641)
T ss_pred             CCccceeEEEEEEecccCCcceeEeeeee
Confidence            34466789999999999999999876654

>cd03112 CobW_like The function of this protein family is unkown

Probab=97.80  E-value=0.00011  Score=58.03  Aligned_cols=63  Identities=14%  Similarity=-0.047  Sum_probs=36.7

Q ss_pred             EEEEEEeCCCccccccchhh--------hhcCCcEEEEEEeCCChhhH-HHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          132 ISYSIWEVTGDAKAQDHLPV--------ACKDSIAILFMFDLTSRCTL-KSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~--------~~~~a~~vilv~D~~~~~s~-~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      ....+.||+|-..-..+...        ..-..++++.+.|+.+.... .+...+..++..     .-+||.||+||
T Consensus        87 ~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~-----ad~ivlnk~dl  158 (158)
T cd03112          87 FDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAF-----ADRILLNKTDL  158 (158)
T ss_pred             CCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHH-----CCEEEEecccC
Confidence            45678999996543333322        12357899999997653331 122233444432     23789999995

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.79  E-value=5.8e-05  Score=64.92  Aligned_cols=95  Identities=15%  Similarity=0.148  Sum_probs=56.1

Q ss_pred             EEEEEEEeCCCccccccch----hh---h-----hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          131 RISYSIWEVTGDAKAQDHL----PV---A-----CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~~~----~~---~-----~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      .+.+.+.||+|........    ..   .     -..+|.+++|.|++-.  .+.+. +...+.+..  .+--+|.||.|
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~--~~~~~-~~~~f~~~~--~~~g~IlTKlD  228 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTG--QNALE-QAKVFNEAV--GLTGIILTKLD  228 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCC--HHHHH-HHHHHHhhC--CCCEEEEEccC
Confidence            3568899999965432211    11   1     1237899999998642  22322 222222211  12249999999


Q ss_pred             CCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          199 DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       199 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      ..         ...-.+..++...+.|+.+++  +|++++++-
T Consensus       229 e~---------~~~G~~l~~~~~~~~Pi~~~~--~Gq~~~dl~  260 (272)
T TIGR00064       229 GT---------AKGGIILSIAYELKLPIKFIG--VGEKIDDLA  260 (272)
T ss_pred             CC---------CCccHHHHHHHHHCcCEEEEe--CCCChHhCc
Confidence            41         112345556667789998887  888887763

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.

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=97.77  E-value=0.00021  Score=64.73  Aligned_cols=119  Identities=17%  Similarity=0.222  Sum_probs=74.6

Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhh----------HHHHHHHHHHHHHh--CCCCceEEEEeCC
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCT----------LKSVIRWYQQARKC--NQTAIPIIIGTKF  197 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s----------~~~~~~~~~~i~~~--~~~~~~ilvgnK~  197 (268)
                      ....+.++|++|+...+.-|-+++.++++||+|+++++-+-          +.+.....+.+-..  -.+.++||+.||.
T Consensus       234 ~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~  313 (389)
T PF00503_consen  234 GSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKI  313 (389)
T ss_dssp             TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-H
T ss_pred             cccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecH
Confidence            34557899999999888999999999999999999875321          22222333333222  1355668999999


Q ss_pred             CCCC-CC----------Cccchh--chHHHHHHHHHH------------hCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          198 DDFI-QL----------PIDLQW--TIASQARAYAKA------------LNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       198 Dl~~-~~----------~~~~~~--~~~~~~~~~~~~------------~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      |+.. ++          ++-...  ...+.+..+...            ..+-++.|+|.+-.++..+|+.+.+.|
T Consensus       314 D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~i  389 (389)
T PF00503_consen  314 DLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAVKDII  389 (389)
T ss_dssp             HHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHhcCcC
Confidence            9642 11          111011  223444444332            112345699999999999999887653

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>PRK13695 putative NTPase; Provisional

Probab=97.75  E-value=0.00062  Score=54.43  Aligned_cols=22  Identities=32%  Similarity=0.501  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +||++.|.+|+|||||+..+.+
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998653

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=97.75  E-value=0.0001  Score=69.77  Aligned_cols=111  Identities=18%  Similarity=0.250  Sum_probs=79.6

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC------------CCC--CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE------------KEQ--GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ  146 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~------------~~~--~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~  146 (268)
                      ...-.++++-.-.-|||||+..++...            |.+  ....|-|.+..+..+..--+.+.++++|++|+-+|.
T Consensus         7 ~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspghvdf~   86 (887)
T KOG0467|consen    7 EGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHVDFS   86 (887)
T ss_pred             CceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCccchh
Confidence            334578899999999999999886532            111  112234555555555555577889999999999999


Q ss_pred             cchhhhhcCCcEEEEEEeCCChh---hHHHHH-HHHHHHHHhCCCCceEEEEeCCC
Q 041042          147 DHLPVACKDSIAILFMFDLTSRC---TLKSVI-RWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~---s~~~~~-~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      +......+-+|++++++|+...-   +..-++ -|.+       +..||+|.||+|
T Consensus        87 sevssas~l~d~alvlvdvvegv~~qt~~vlrq~~~~-------~~~~~lvinkid  135 (887)
T KOG0467|consen   87 SEVSSASRLSDGALVLVDVVEGVCSQTYAVLRQAWIE-------GLKPILVINKID  135 (887)
T ss_pred             hhhhhhhhhcCCcEEEEeeccccchhHHHHHHHHHHc-------cCceEEEEehhh
Confidence            99999999999999999986542   222222 2332       556899999999

>KOG3929 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.75  E-value=1.5e-05  Score=66.42  Aligned_cols=171  Identities=20%  Similarity=0.286  Sum_probs=106.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEE-EEECCeEEEEEEEeCCCccccccchhhhhc----
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKT-LLVRGARISYSIWEVTGDAKAQDHLPVACK----  154 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~-~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~----  154 (268)
                      ...+..|++.|..+  ||++|+++....- ....+|....|.... ..-++.+--.++|+.+|......+...-+.    
T Consensus        42 ~~~E~~I~~~Gn~~--~tt~I~~~FdR~e-~~~~ptlaLEYtygRR~~g~~~kdiaN~WELGgg~~~~~LLsVPit~~~l  118 (363)
T KOG3929|consen   42 EKFEFFIGSKGNGG--KTTIILRCFDRDE-PPKPPTLALEYTYGRRAKGHNPKDIANFWELGGGTSLLDLLSVPITGDTL  118 (363)
T ss_pred             ccceeEEEEecCCc--eeEeehhhcCccc-CCCCCceeeeeehhhhccCCCchhHHHHHHhcCCccHHHHhcCcccccch
Confidence            55578899999765  5999998876542 334455544442211 111223334679999997654443322222    


Q ss_pred             CCcEEEEEEeCCChhhH-HHHHHHHHHHHH----------------------h---------------CCCCce-EEEEe
Q 041042          155 DSIAILFMFDLTSRCTL-KSVIRWYQQARK----------------------C---------------NQTAIP-IIIGT  195 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~-~~~~~~~~~i~~----------------------~---------------~~~~~~-ilvgn  195 (268)
                      ..-.+|++.|.++++.| -.+...++.+++                      .               ++-..| +|||.
T Consensus       119 ~~~slIL~LDls~p~~~W~t~E~~~~~~R~~vd~~~~~~~k~~~~L~E~mrqR~~~rvgqd~~d~e~~dP~P~PV~IVgs  198 (363)
T KOG3929|consen  119 RTFSLILVLDLSKPNDLWPTMENLLQATRSHVDKVIMKLGKTNAKLVEEMRQRIWNRVGQDHPDHELIDPFPVPVVIVGS  198 (363)
T ss_pred             hhhhheeeeecCChHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHhcccCCCchhhcCCCCCceEEecc
Confidence            12367899999997642 222222222210                      0               112234 69999


Q ss_pred             CCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHhcCcc
Q 041042          196 KFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       196 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      |.|.+.....+.++....-++.+|..+|...+.-|++-..=...+.+.+.+..+....
T Consensus       199 KYDvFq~FesekRkH~C~~LRf~Ah~yGaaLlmfSskMe~l~K~~r~~i~HlaFG~~~  256 (363)
T KOG3929|consen  199 KYDVFQDFESEKRKHICKTLRFVAHYYGAALLMFSSKMEALLKKIRGVINHLAFGIDK  256 (363)
T ss_pred             chhhhccccHHHHHHHHHHHHHHHHHhhhHHHHHHHhhHHHHHHHHhhHHHhhcCCcC
Confidence            9998777777777777888889999999988888888666555666666666666553

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.73  E-value=0.00033  Score=60.30  Aligned_cols=93  Identities=12%  Similarity=0.111  Sum_probs=67.0

Q ss_pred             cchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe
Q 041042          147 DHLPVACKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT  225 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (268)
                      .+.+--+.+.|-+++|+.+.+++ +..-+.+++-.+..  .+..||||.||+||   +.++....  ++........|.+
T Consensus        71 ~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~--~gi~pvIvlnK~DL---~~~~~~~~--~~~~~~y~~~gy~  143 (301)
T COG1162          71 VLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA--GGIEPVIVLNKIDL---LDDEEAAV--KELLREYEDIGYP  143 (301)
T ss_pred             ceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH--cCCcEEEEEEcccc---CcchHHHH--HHHHHHHHhCCee
Confidence            34444455678888888888776 55566666544433  46678999999998   44332222  5677778889999


Q ss_pred             EEEEcCCCCcCHHHHHHHHHH
Q 041042          226 LFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                      .+.+|++++.+++++...+..
T Consensus       144 v~~~s~~~~~~~~~l~~~l~~  164 (301)
T COG1162         144 VLFVSAKNGDGLEELAELLAG  164 (301)
T ss_pred             EEEecCcCcccHHHHHHHhcC
Confidence            999999999999999887654

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.73  E-value=7.1e-05  Score=63.44  Aligned_cols=58  Identities=16%  Similarity=0.167  Sum_probs=34.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC-CCCCCC-----CcceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK-EQGGSP-----GEGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~-----t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      -.++++|.+|||||||+|++.+..- .....+     ....+.....+..++.    .++||||-..+
T Consensus       121 ~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~~~----~liDtPG~~~~  184 (245)
T TIGR00157       121 RISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFHGG----LIADTPGFNEF  184 (245)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcCCc----EEEeCCCcccc
Confidence            3688999999999999999987532 111111     0111222223333332    58999997553

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=97.70  E-value=0.00036  Score=64.32  Aligned_cols=141  Identities=14%  Similarity=0.146  Sum_probs=79.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      .+..+=++|+|+||+|||||++.++..--..    |+..-.. -...+.|++-++.+++++.  ....+.. ..+-||.+
T Consensus        66 ~PPPfIvavvGPpGtGKsTLirSlVrr~tk~----ti~~i~G-PiTvvsgK~RRiTflEcp~--Dl~~miD-vaKIaDLV  137 (1077)
T COG5192          66 LPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQ----TIDEIRG-PITVVSGKTRRITFLECPS--DLHQMID-VAKIADLV  137 (1077)
T ss_pred             CCCCeEEEeecCCCCChhHHHHHHHHHHHHh----hhhccCC-ceEEeecceeEEEEEeChH--HHHHHHh-HHHhhhee
Confidence            3445888999999999999999887642111    1111011 1113567788899999882  3233332 23568999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCceE-EEEeCCCCCCCCCccchhchHH--HHHHHHHHh-CCeEEEEcCCC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFIQLPIDLQWTIAS--QARAYAKAL-NATLFFSSATY  233 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~i-lvgnK~Dl~~~~~~~~~~~~~~--~~~~~~~~~-~~~~~~~Sa~~  233 (268)
                      ++++|..-.-..+. .++++.+..+  ..|-| -|.|..||+.+.+.  -+..+.  .-+-|.+-+ |+.+|..|-..
T Consensus       138 lLlIdgnfGfEMET-mEFLnil~~H--GmPrvlgV~ThlDlfk~~st--Lr~~KKrlkhRfWtEiyqGaKlFylsgV~  210 (1077)
T COG5192         138 LLLIDGNFGFEMET-MEFLNILISH--GMPRVLGVVTHLDLFKNPST--LRSIKKRLKHRFWTEIYQGAKLFYLSGVE  210 (1077)
T ss_pred             EEEeccccCceehH-HHHHHHHhhc--CCCceEEEEeecccccChHH--HHHHHHHHhhhHHHHHcCCceEEEecccc
Confidence            99999753211111 2344444433  23335 78999998533221  111111  113344444 78888888653

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.70  E-value=8.3e-05  Score=66.62  Aligned_cols=56  Identities=16%  Similarity=0.325  Sum_probs=36.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC------CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK------EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK  144 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~------~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~  144 (268)
                      .+++++|.+|||||||+|++.+...      .....|  |.+.....+.+++.   +.++||||-..
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~p--gtT~~~~~~~~~~~---~~l~DtPG~~~  216 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFP--GTTLDLIEIPLDDG---HSLYDTPGIIN  216 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCC--CeEeeEEEEEeCCC---CEEEECCCCCC
Confidence            4899999999999999999987532      222223  22333333444222   46999999543

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.

>PRK13796 GTPase YqeH; Provisional

Probab=97.70  E-value=6.8e-05  Score=67.29  Aligned_cols=55  Identities=11%  Similarity=0.309  Sum_probs=36.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC------CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK------EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA  143 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~------~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~  143 (268)
                      .++.++|.+|||||||+|++.....      .....|  |.+.....+.+++.   ..++||||-.
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~p--GTT~~~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFP--GTTLDKIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCC--CccceeEEEEcCCC---cEEEECCCcc
Confidence            4799999999999999999985421      112223  33333344444433   3589999964

>PRK14974 cell division protein FtsY; Provisional

Probab=97.67  E-value=0.00037  Score=61.63  Aligned_cols=92  Identities=17%  Similarity=0.222  Sum_probs=55.3

Q ss_pred             EEEEEEeCCCcccccc-c---hhhhh--cCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQD-H---LPVAC--KDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQL  203 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~-~---~~~~~--~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~  203 (268)
                      +.+.+.||+|...... +   ...+.  ...|.+++|.|++... ..+.       +..+... .+--+|.||.|...  
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~-------a~~f~~~~~~~giIlTKlD~~~--  293 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQ-------AREFNEAVGIDGVILTKVDADA--  293 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHH-------HHHHHhcCCCCEEEEeeecCCC--
Confidence            4588999999654211 1   12222  2578899999986532 2222       2222211 23359999999521  


Q ss_pred             CccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                             ..-.+..++...+.|+..++  +|++++++.
T Consensus       294 -------~~G~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~  322 (336)
T PRK14974        294 -------KGGAALSIAYVIGKPILFLG--VGQGYDDLI  322 (336)
T ss_pred             -------CccHHHHHHHHHCcCEEEEe--CCCChhhcc
Confidence                   12334555666789988887  799998774

>PRK12289 GTPase RsgA; Reviewed

Probab=97.64  E-value=9.9e-05  Score=65.70  Aligned_cols=57  Identities=16%  Similarity=0.269  Sum_probs=34.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCC-CCCCCCC---cc--eeeEEEEEEECCeEEEEEEEeCCCccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEK-EQGGSPG---EG--LNMMDKTLLVRGARISYSIWEVTGDAK  144 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t---~~--~~~~~~~~~~~~~~~~l~i~Dt~G~~~  144 (268)
                      -++|+|.+|||||||||.|.++.- .....+.   -|  .+.....+..++..   .++||||-..
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g~---~liDTPG~~~  236 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNGG---LLADTPGFNQ  236 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCCc---EEEeCCCccc
Confidence            379999999999999999987542 1111111   01  12222333343222   5899999554

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.62  E-value=4.9e-05  Score=64.92  Aligned_cols=163  Identities=15%  Similarity=0.160  Sum_probs=97.4

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCC---CCCCCCC--CcceeeEEEE-EEE--------------------------CC
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDE---KEQGGSP--GEGLNMMDKT-LLV--------------------------RG  129 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~---~~~~~~~--t~~~~~~~~~-~~~--------------------------~~  129 (268)
                      -.++|--+|.-.-||||+++.+.+-.   |......  |+...|..-. +.-                          .|
T Consensus        37 ATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~~~g  116 (466)
T KOG0466|consen   37 ATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCDRPG  116 (466)
T ss_pred             eeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcccCC
Confidence            35899999999999999999886531   2222111  1111111100 000                          01


Q ss_pred             --eE----EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh----hHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          130 --AR----ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC----TLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       130 --~~----~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~----s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                        .+    -.+.|.|++|++-..+..-.-..-.|++++++..+..+    +-+.+.. . ++.+   -.-++++-||+||
T Consensus       117 ~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaa-v-eiM~---LkhiiilQNKiDl  191 (466)
T KOG0466|consen  117 CEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAA-V-EIMK---LKHIIILQNKIDL  191 (466)
T ss_pred             CCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHH-H-HHhh---hceEEEEechhhh
Confidence              01    23568999998764332211112247777777665432    3333221 1 1111   2235689999998


Q ss_pred             CCCCCccchhchHHHHHHHHHHh---CCeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          200 FIQLPIDLQWTIASQARAYAKAL---NATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                         +.++.-....++++.|.+..   +.+++.+||....||+-+.++|++.+....
T Consensus       192 ---i~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvPv  244 (466)
T KOG0466|consen  192 ---IKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVPV  244 (466)
T ss_pred             ---hhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCCc
Confidence               44444444467777787754   578999999999999999999999887654

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.61  E-value=0.0005  Score=62.57  Aligned_cols=139  Identities=14%  Similarity=0.062  Sum_probs=72.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc------CCC---CC-CCC-----------CCcceeeEEEEEEEC-------------C
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG------DEK---EQ-GGS-----------PGEGLNMMDKTLLVR-------------G  129 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~------~~~---~~-~~~-----------~t~~~~~~~~~~~~~-------------~  129 (268)
                      .-|+++|.+||||||++..+..      .+.   .. .+.           ...+..+....-..+             .
T Consensus       101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~~  180 (429)
T TIGR01425       101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFKK  180 (429)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHHh
Confidence            5789999999999999988852      110   01 111           011222221000000             0


Q ss_pred             eEEEEEEEeCCCcccccc-ch---hhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCC
Q 041042          130 ARISYSIWEVTGDAKAQD-HL---PVA--CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQ  202 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~-~~---~~~--~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~  202 (268)
                      ..+.+.|+||+|...... +.   ..+  ....+.+++|.|++-...-   ....+.+   .....+ -+|.||.|..  
T Consensus       181 ~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a---~~~a~~F---~~~~~~~g~IlTKlD~~--  252 (429)
T TIGR01425       181 ENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAA---EAQAKAF---KDSVDVGSVIITKLDGH--  252 (429)
T ss_pred             CCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhH---HHHHHHH---HhccCCcEEEEECccCC--
Confidence            245788999999543321 11   111  2356789999998643221   1112222   222233 5999999941  


Q ss_pred             CCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                          .   ..-.+.......+.|+.+++  +|+++++
T Consensus       253 ----a---rgG~aLs~~~~t~~PI~fig--~Ge~v~D  280 (429)
T TIGR01425       253 ----A---KGGGALSAVAATKSPIIFIG--TGEHIDD  280 (429)
T ss_pred             ----C---CccHHhhhHHHHCCCeEEEc--CCCChhh
Confidence                1   12234555666777766654  3444444

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.59  E-value=0.00014  Score=62.67  Aligned_cols=57  Identities=16%  Similarity=0.208  Sum_probs=34.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC------CCCCCCCCcceeeEEEEEEEC-CeEEEEEEEeCCCcccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE------KEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTGDAKA  145 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~------~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~  145 (268)
                      -.+++|.+|||||||+|++..+.      ........-..+....-+.++ |.    .+.||||...+
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG----~iiDTPGf~~~  229 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGG----WIIDTPGFRSL  229 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCC----EEEeCCCCCcc
Confidence            57899999999999999998632      111111111122333444553 33    37899997664

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.55  E-value=0.00065  Score=60.83  Aligned_cols=154  Identities=16%  Similarity=0.133  Sum_probs=79.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC---CCCCCCCCc--------------------ceeeEEEEEEE---------CCeE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE---KEQGGSPGE--------------------GLNMMDKTLLV---------RGAR  131 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~---~~~~~~~t~--------------------~~~~~~~~~~~---------~~~~  131 (268)
                      --++++|++||||||++.++...-   +......-+                    |..+.  .+.-         .-..
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~--~~~~~~~l~~~l~~l~~  215 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH--AVKDGGDLQLALAELRN  215 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE--ecCCcccHHHHHHHhcC
Confidence            468899999999999999986531   100000000                    11111  0100         0123


Q ss_pred             EEEEEEeCCCccccccch----hhh--hcCCcEEEEEEeCCC-hhhHHHHHHHHHHHHHh-CCCCc-e-EEEEeCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQDHL----PVA--CKDSIAILFMFDLTS-RCTLKSVIRWYQQARKC-NQTAI-P-IIIGTKFDDFI  201 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~----~~~--~~~a~~vilv~D~~~-~~s~~~~~~~~~~i~~~-~~~~~-~-ilvgnK~Dl~~  201 (268)
                      ..+.++||+|...+....    ...  .....-.++|.+.+. .+....+..-+...... ....+ + =+|.||.|-. 
T Consensus       216 ~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt-  294 (374)
T PRK14722        216 KHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEA-  294 (374)
T ss_pred             CCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccccC-
Confidence            468899999965433221    111  122345688888765 34444433222222111 11112 2 3889999941 


Q ss_pred             CCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH-----HHHHHHHHhc
Q 041042          202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI-----LKFITAKLFD  250 (268)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~-----f~~l~~~i~~  250 (268)
                              ...-.+..++...+.++..++  +|++|.+=     -+.|++.++.
T Consensus       295 --------~~~G~~l~~~~~~~lPi~yvt--~Gq~VPedl~~a~~~~l~~~~~~  338 (374)
T PRK14722        295 --------SNLGGVLDTVIRYKLPVHYVS--TGQKVPENLYVATKKFLLKSAFC  338 (374)
T ss_pred             --------CCccHHHHHHHHHCcCeEEEe--cCCCCCcccccCCHHHHHHHHhc
Confidence                    124556777888888877764  44444431     2334555554

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.52  E-value=0.0044  Score=48.48  Aligned_cols=56  Identities=27%  Similarity=0.438  Sum_probs=40.8

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCC
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT  140 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~  140 (268)
                      ..+||.+.|.||||||||+.++.+.--...+  ++| -|...++.-+|+.+-|.+.|++
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g~--kvg-Gf~t~EVR~gGkR~GF~Ivdl~   59 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLREKGY--KVG-GFITPEVREGGKRIGFKIVDLA   59 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcCc--eee-eEEeeeeecCCeEeeeEEEEcc
Confidence            3589999999999999999998643111111  122 3666777778888888899987

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.49  E-value=0.00085  Score=53.51  Aligned_cols=83  Identities=14%  Similarity=0.121  Sum_probs=45.1

Q ss_pred             EEEEEEeCCCccccc----cchhhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCc
Q 041042          132 ISYSIWEVTGDAKAQ----DHLPVAC--KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPI  205 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~----~~~~~~~--~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~  205 (268)
                      ..+.+.|++|...+.    .....+.  ...+.+++|+|.....   +...+...+.+...  .--+|.||.|..     
T Consensus        83 ~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~---~~~~~~~~~~~~~~--~~~viltk~D~~-----  152 (173)
T cd03115          83 FDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQ---DAVNQAKAFNEALG--ITGVILTKLDGD-----  152 (173)
T ss_pred             CCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCCh---HHHHHHHHHHhhCC--CCEEEEECCcCC-----
Confidence            457789999964321    1111111  3489999999986433   22234444433222  334788999952     


Q ss_pred             cchhchHHHHHHHHHHhCCeEEE
Q 041042          206 DLQWTIASQARAYAKALNATLFF  228 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~  228 (268)
                          .....+...+...++|+..
T Consensus       153 ----~~~g~~~~~~~~~~~p~~~  171 (173)
T cd03115         153 ----ARGGAALSIRAVTGKPIKF  171 (173)
T ss_pred             ----CCcchhhhhHHHHCcCeEe
Confidence                1122233467777776544

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.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.42  E-value=0.0004  Score=60.28  Aligned_cols=59  Identities=15%  Similarity=0.232  Sum_probs=36.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCC-CCCC-----CcceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQ-GGSP-----GEGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~-----t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      -.++++|.+|||||||+|.+.+..... ...+     ..+.+.....+...+.   ..++||||...+
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~~  226 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFREF  226 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCcc
Confidence            468999999999999999998864221 1111     1111222233333321   248999998664

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.

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.39  E-value=0.0012  Score=50.76  Aligned_cols=104  Identities=10%  Similarity=0.003  Sum_probs=60.7

Q ss_pred             EEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCC
Q 041042           88 LLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTS  167 (268)
Q Consensus        88 vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~  167 (268)
                      .-|.+|+|||++...+...- ......+.-.|...   ......+.+.++|+++..  .......+..+|.++++.+.+ 
T Consensus         5 ~~~kgg~gkt~~~~~~a~~~-~~~~~~~~~vd~D~---~~~~~~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~-   77 (139)
T cd02038           5 TSGKGGVGKTNISANLALAL-AKLGKRVLLLDADL---GLANLDYDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE-   77 (139)
T ss_pred             EcCCCCCcHHHHHHHHHHHH-HHCCCcEEEEECCC---CCCCCCCCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC-
Confidence            45678999999976653321 01111111111110   000111568899999743  333456788999999999875 


Q ss_pred             hhhHHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          168 RCTLKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       168 ~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      ..++..+...++.+..........+|.|+.+
T Consensus        78 ~~s~~~~~~~l~~l~~~~~~~~~~lVvN~~~  108 (139)
T cd02038          78 PTSITDAYALIKKLAKQLRVLNFRVVVNRAE  108 (139)
T ss_pred             hhHHHHHHHHHHHHHHhcCCCCEEEEEeCCC
Confidence            5556665555555554443344459999998

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.36  E-value=0.0018  Score=60.24  Aligned_cols=136  Identities=12%  Similarity=0.089  Sum_probs=72.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC--------CC---CCC-CC-----------CCcceeeEEEEEEE---------CCeE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD--------EK---EQG-GS-----------PGEGLNMMDKTLLV---------RGAR  131 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~--------~~---~~~-~~-----------~t~~~~~~~~~~~~---------~~~~  131 (268)
                      -.|+|+|.+|+||||++..|...        ..   ..+ +.           ...+..+.  ...-         .-..
T Consensus       351 ~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~--~a~d~~~L~~aL~~l~~  428 (559)
T PRK12727        351 GVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVH--EADSAESLLDLLERLRD  428 (559)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeE--ecCcHHHHHHHHHHhcc
Confidence            57889999999999999887542        10   000 00           00111111  0000         0124


Q ss_pred             EEEEEEeCCCccccccc-hhh--hhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCcc
Q 041042          132 ISYSIWEVTGDAKAQDH-LPV--ACK--DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPID  206 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~-~~~--~~~--~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~  206 (268)
                      +.+.|+||+|....... ...  .+.  .....++|++.+.  ++..+...++.+..   ..+--+|.||.|.       
T Consensus       429 ~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAts--s~~Dl~eii~~f~~---~~~~gvILTKlDE-------  496 (559)
T PRK12727        429 YKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANA--HFSDLDEVVRRFAH---AKPQGVVLTKLDE-------  496 (559)
T ss_pred             CCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCC--ChhHHHHHHHHHHh---hCCeEEEEecCcC-------
Confidence            67889999995432211 100  011  1234567777653  34444444443332   2333599999994       


Q ss_pred             chhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          207 LQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                        ......+..+....+.++..++  +|++|
T Consensus       497 --t~~lG~aLsv~~~~~LPI~yvt--~GQ~V  523 (559)
T PRK12727        497 --TGRFGSALSVVVDHQMPITWVT--DGQRV  523 (559)
T ss_pred             --ccchhHHHHHHHHhCCCEEEEe--CCCCc
Confidence              1123566677778888877764  45555

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.34  E-value=0.00029  Score=64.45  Aligned_cols=91  Identities=16%  Similarity=0.147  Sum_probs=53.1

Q ss_pred             EEEEEeCCCcccccc-c---hhhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCc
Q 041042          133 SYSIWEVTGDAKAQD-H---LPVA--CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPI  205 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~-~---~~~~--~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~  205 (268)
                      .+.++||+|...... +   ....  ...+|.+++|.|.+...   +.   ++.++.+.....+ -+|.||.|..     
T Consensus       177 DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq---~a---v~~a~~F~~~l~i~gvIlTKlD~~-----  245 (437)
T PRK00771        177 DVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQ---QA---KNQAKAFHEAVGIGGIIITKLDGT-----  245 (437)
T ss_pred             CEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccH---HH---HHHHHHHHhcCCCCEEEEecccCC-----
Confidence            688999999654321 1   1111  34678999999986642   22   2223333323334 4889999941     


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          206 DLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                          ..--.+..++...+.|+.+++.  |+.++++
T Consensus       246 ----a~~G~~ls~~~~~~~Pi~fig~--Ge~v~Dl  274 (437)
T PRK00771        246 ----AKGGGALSAVAETGAPIKFIGT--GEKIDDL  274 (437)
T ss_pred             ----CcccHHHHHHHHHCcCEEEEec--CCCcccC
Confidence                1134466677788888777653  4444443

>PRK00098 GTPase RsgA; Reviewed

Probab=97.33  E-value=0.00045  Score=60.30  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      -.++++|.+|||||||+|.+.+..
T Consensus       165 k~~~~~G~sgvGKStlin~l~~~~  188 (298)
T PRK00098        165 KVTVLAGQSGVGKSTLLNALAPDL  188 (298)
T ss_pred             ceEEEECCCCCCHHHHHHHHhCCc
Confidence            368899999999999999998754

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.32  E-value=0.001  Score=42.58  Aligned_cols=44  Identities=20%  Similarity=0.384  Sum_probs=30.5

Q ss_pred             CCcEEEEEEeCCChhh--HHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          155 DSIAILFMFDLTSRCT--LKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s--~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      -++++++++|++..+.  .++-...+++++..-++.|.++|.||+|
T Consensus        13 L~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   13 LADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFPNKPVIVVLNKID   58 (58)
T ss_dssp             T-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTTTS-EEEEE--TT
T ss_pred             hcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCEEEEEeccC
Confidence            3589999999998774  4555577888888877888899999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.28  E-value=0.0011  Score=48.01  Aligned_cols=82  Identities=12%  Similarity=0.076  Sum_probs=50.8

Q ss_pred             EEEEc-CCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           86 ISLLG-DCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        86 i~vlG-~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      |++.| ..|+||||+...+...- .....++.-.+       .+.. +.+.++|+++...  ......+..+|.++++.+
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~-~~~~~~vl~~d-------~d~~-~d~viiD~p~~~~--~~~~~~l~~ad~viv~~~   70 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAAL-ARRGKRVLLID-------LDPQ-YDYIIIDTPPSLG--LLTRNALAAADLVLIPVQ   70 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHH-HhCCCcEEEEe-------CCCC-CCEEEEeCcCCCC--HHHHHHHHHCCEEEEecc
Confidence            45666 56899999877654321 11111211111       1211 5688999998643  233467788999999998


Q ss_pred             CCChhhHHHHHHHHH
Q 041042          165 LTSRCTLKSVIRWYQ  179 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~  179 (268)
                      .+ ..++..+..+++
T Consensus        71 ~~-~~s~~~~~~~~~   84 (104)
T cd02042          71 PS-PLDLDGLEKLLE   84 (104)
T ss_pred             CC-HHHHHHHHHHHH
Confidence            74 667777776665

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=97.25  E-value=0.0056  Score=50.84  Aligned_cols=76  Identities=14%  Similarity=0.098  Sum_probs=43.3

Q ss_pred             EEEEeC-CCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchH
Q 041042          134 YSIWEV-TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIA  212 (268)
Q Consensus       134 l~i~Dt-~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~  212 (268)
                      +.+.|| +|.|.|   .+...+++|.+|+|.|.+ ..|+....+.-+...+.. -..+.+|.||.|-       .    .
T Consensus       136 ~VivDtEAGiEHf---gRg~~~~vD~vivVvDpS-~~sl~taeri~~L~~elg-~k~i~~V~NKv~e-------~----e  199 (255)
T COG3640         136 VVIVDTEAGIEHF---GRGTIEGVDLVIVVVDPS-YKSLRTAERIKELAEELG-IKRIFVVLNKVDE-------E----E  199 (255)
T ss_pred             EEEEecccchhhh---ccccccCCCEEEEEeCCc-HHHHHHHHHHHHHHHHhC-CceEEEEEeeccc-------h----h
Confidence            445555 343333   234457899999999987 455655544333333322 1334599999992       1    3


Q ss_pred             HHHHHHHHHhCCe
Q 041042          213 SQARAYAKALNAT  225 (268)
Q Consensus       213 ~~~~~~~~~~~~~  225 (268)
                      +....++...+.+
T Consensus       200 ~~~~~~~~~~~~~  212 (255)
T COG3640         200 ELLRELAEELGLE  212 (255)
T ss_pred             HHHHhhhhccCCe
Confidence            4455556555553

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

Probab=97.22  E-value=0.002  Score=50.16  Aligned_cols=58  Identities=10%  Similarity=0.058  Sum_probs=36.1

Q ss_pred             EEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          131 RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      .+.+.+.||+|...  .. ..++..||-+|+|...+-.+.+.-++-  ..+     ...-+++.||.|
T Consensus        91 ~~D~iiIDtaG~~~--~~-~~~~~~Ad~~ivv~tpe~~D~y~~~k~--~~~-----~~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQ--SE-VDIASMADTTVVVMAPGAGDDIQAIKA--GIM-----EIADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccCh--hh-hhHHHhCCEEEEEECCCchhHHHHhhh--hHh-----hhcCEEEEeCCC
Confidence            45688999998643  22 348889998998887653333322111  111     223489999998

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.

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

Probab=97.22  E-value=0.002  Score=57.63  Aligned_cols=153  Identities=14%  Similarity=0.122  Sum_probs=82.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcce---eeEE---------------EEEE--E----------CCeEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL---NMMD---------------KTLL--V----------RGARI  132 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~---~~~~---------------~~~~--~----------~~~~~  132 (268)
                      .=.|+++|+.||||||-+-.|...-........+|.   |.+.               ..+.  .          .-..+
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            346889999999999988776443221111111211   1110               0000  0          11345


Q ss_pred             EEEEEeCCCccccccc----hhhhhcCC--cEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCc
Q 041042          133 SYSIWEVTGDAKAQDH----LPVACKDS--IAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPI  205 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~----~~~~~~~a--~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~  205 (268)
                      .+.+.||+|...+...    ...|+...  .-+.||++++..  .+.+...++.+   . ..++ =++.||.|-      
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K--~~dlkei~~~f---~-~~~i~~~I~TKlDE------  350 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK--YEDLKEIIKQF---S-LFPIDGLIFTKLDE------  350 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc--hHHHHHHHHHh---c-cCCcceeEEEcccc------
Confidence            6889999997665432    23333322  345566676542  23444444443   2 2222 399999993      


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH-H----HHHHHHHHhcCc
Q 041042          206 DLQWTIASQARAYAKALNATLFFSSATYNINVNK-I----LKFITAKLFDIP  252 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~-~----f~~l~~~i~~~~  252 (268)
                         ....-.+-.++.+.+.|.-.++  +|++|.+ +    -.++++.++.-.
T Consensus       351 ---T~s~G~~~s~~~e~~~PV~YvT--~GQ~VPeDI~va~~~~Lv~~~~g~~  397 (407)
T COG1419         351 ---TTSLGNLFSLMYETRLPVSYVT--NGQRVPEDIVVANPDYLVRRILGTF  397 (407)
T ss_pred             ---cCchhHHHHHHHHhCCCeEEEe--CCCCCCchhhhcChHHHHHHHhccc
Confidence               2235566677777777765553  5665542 2    345666666554

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=97.22  E-value=0.017  Score=52.13  Aligned_cols=156  Identities=12%  Similarity=0.179  Sum_probs=91.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC-----------------CCCCC----CCCCcceeeEE---EEEEE-CCeEEEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD-----------------EKEQG----GSPGEGLNMMD---KTLLV-RGARISYSIW  137 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~-----------------~~~~~----~~~t~~~~~~~---~~~~~-~~~~~~l~i~  137 (268)
                      .+=+-|+|+-.+||||||+||..-                 +..++    ..-|+..-|..   ..+.+ ++..+++.+.
T Consensus        17 dIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRLi   96 (492)
T PF09547_consen   17 DIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRLI   96 (492)
T ss_pred             ceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEEE
Confidence            477899999999999999999651                 11111    11111222222   13334 5678889999


Q ss_pred             eCCCc--------ccc--ccc----h---------------hhhhcC--CcEEEEEEeCC----ChhhHHHHH-HHHHHH
Q 041042          138 EVTGD--------AKA--QDH----L---------------PVACKD--SIAILFMFDLT----SRCTLKSVI-RWYQQA  181 (268)
Q Consensus       138 Dt~G~--------~~~--~~~----~---------------~~~~~~--a~~vilv~D~~----~~~s~~~~~-~~~~~i  181 (268)
                      |+-|-        +.-  ..+    |               +..+++  .-++++--|.+    .+++|..+. +.++++
T Consensus        97 DCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~EL  176 (492)
T PF09547_consen   97 DCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEEL  176 (492)
T ss_pred             eecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHHH
Confidence            98771        110  000    0               011111  22555555543    245565554 566666


Q ss_pred             HHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC--CCcCHHHHHHHHHHH
Q 041042          182 RKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT--YNINVNKILKFITAK  247 (268)
Q Consensus       182 ~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~--~~~~i~~~f~~l~~~  247 (268)
                      +..  +.|.||+.|-.+       .......+-..++.++++++.+.+++.  +.+.|..+++.++..
T Consensus       177 k~i--gKPFvillNs~~-------P~s~et~~L~~eL~ekY~vpVlpvnc~~l~~~DI~~Il~~vLyE  235 (492)
T PF09547_consen  177 KEI--GKPFVILLNSTK-------PYSEETQELAEELEEKYDVPVLPVNCEQLREEDITRILEEVLYE  235 (492)
T ss_pred             HHh--CCCEEEEEeCCC-------CCCHHHHHHHHHHHHHhCCcEEEeehHHcCHHHHHHHHHHHHhc
Confidence            654  456788888887       233455777888899999999987764  445566666665543

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=97.20  E-value=0.00047  Score=62.90  Aligned_cols=57  Identities=21%  Similarity=0.321  Sum_probs=40.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA  143 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~  143 (268)
                      .+-|-+||-|||||||+||.|++.+- .....|-|-+-+-.++.+..   .+-+.|++|.-
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~Kk-VsVS~TPGkTKHFQTi~ls~---~v~LCDCPGLV  370 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKK-VSVSSTPGKTKHFQTIFLSP---SVCLCDCPGLV  370 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCce-eeeecCCCCcceeEEEEcCC---CceecCCCCcc
Confidence            58899999999999999999999874 23344445544434444432   25689999953

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

Probab=97.16  E-value=0.007  Score=48.14  Aligned_cols=83  Identities=10%  Similarity=-0.002  Sum_probs=52.5

Q ss_pred             EEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhch
Q 041042          133 SYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTI  211 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~  211 (268)
                      .+.++|+++....  .....+..+|.+|++.+.+ ..++..+..+++.+...  +... .+|.|+.|-       .....
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~~~~~--~~~~~~iv~N~~~~-------~~~~~  131 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPE-ISSLRDADRVKGLLEAL--GIKVVGVIVNRVRP-------DMVEG  131 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCC-cchHHHHHHHHHHHHHc--CCceEEEEEeCCcc-------cccch
Confidence            5889999975432  3445568899999999875 45566666666666653  2233 489999983       11112


Q ss_pred             HHHHHHHHHHhCCeEE
Q 041042          212 ASQARAYAKALNATLF  227 (268)
Q Consensus       212 ~~~~~~~~~~~~~~~~  227 (268)
                      .+..+.+.+.++.+++
T Consensus       132 ~~~~~~~~~~~~~~v~  147 (179)
T cd02036         132 GDMVEDIEEILGVPLL  147 (179)
T ss_pred             hhHHHHHHHHhCCCEE
Confidence            2224455666677654

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=97.16  E-value=0.0012  Score=60.32  Aligned_cols=91  Identities=13%  Similarity=0.140  Sum_probs=50.7

Q ss_pred             EEEEEEeCCCcccccc-ch---hhh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQD-HL---PVA--CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLP  204 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~-~~---~~~--~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~  204 (268)
                      +.+.|.||+|...... +.   ..+  .-..+.+++|.|.+..   +++......+..   ...+ =+|.||.|-     
T Consensus       184 ~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~g---q~av~~a~~F~~---~~~i~giIlTKlD~-----  252 (433)
T PRK10867        184 YDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTG---QDAVNTAKAFNE---ALGLTGVILTKLDG-----  252 (433)
T ss_pred             CCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccH---HHHHHHHHHHHh---hCCCCEEEEeCccC-----
Confidence            5688999999543211 11   111  1256788999997643   223233333322   2223 388899993     


Q ss_pred             ccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          205 IDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                       .   ...-.+...+...++|+.+++.  |+++++
T Consensus       253 -~---~rgG~alsi~~~~~~PI~fig~--Ge~v~D  281 (433)
T PRK10867        253 -D---ARGGAALSIRAVTGKPIKFIGT--GEKLDD  281 (433)
T ss_pred             -c---ccccHHHHHHHHHCcCEEEEeC--CCcccc
Confidence             1   1123366777888888777654  444443

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.14  E-value=0.00085  Score=54.98  Aligned_cols=39  Identities=26%  Similarity=0.133  Sum_probs=27.0

Q ss_pred             HHHHHHHHHhCCeEEE--EcCCCCcCHHHHHHHHHHHHhcC
Q 041042          213 SQARAYAKALNATLFF--SSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       213 ~~~~~~~~~~~~~~~~--~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ..++.+|-+-.+-.|-  |||++-+-+.|+++-+.+...+-
T Consensus       146 AIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eG  186 (240)
T COG1126         146 AIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAEEG  186 (240)
T ss_pred             HHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHHcC
Confidence            3445555554554443  99999999999998887766543

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=97.12  E-value=0.0011  Score=59.03  Aligned_cols=132  Identities=14%  Similarity=0.209  Sum_probs=88.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC--------CCCCCC--------CCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD--------EKEQGG--------SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD  147 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~--------~~~~~~--------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~  147 (268)
                      -+|-++..-.+||||...|++.-        ......        ...-|.+..+..+.++=+..+++++||+|+-.|+-
T Consensus        38 rnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpghvdf~l  117 (753)
T KOG0464|consen   38 RNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGHVDFRL  117 (753)
T ss_pred             hcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCcceEEE
Confidence            35777888899999999987531        111110        01124555555666666777899999999999999


Q ss_pred             chhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeE
Q 041042          148 HLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATL  226 (268)
Q Consensus       148 ~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  226 (268)
                      ....+++--|+++.|||.+-.-.-+.+..|.+.=    .-.+| +...||.|.   +    -..-+..+...-++.++.-
T Consensus       118 everclrvldgavav~dasagve~qtltvwrqad----k~~ip~~~finkmdk---~----~anfe~avdsi~ekl~ak~  186 (753)
T KOG0464|consen  118 EVERCLRVLDGAVAVFDASAGVEAQTLTVWRQAD----KFKIPAHCFINKMDK---L----AANFENAVDSIEEKLGAKA  186 (753)
T ss_pred             EHHHHHHHhcCeEEEEeccCCcccceeeeehhcc----ccCCchhhhhhhhhh---h----hhhhhhHHHHHHHHhCCce
Confidence            9999999999999999988655555566676532    22344 788999994   1    1112344555556666553

>TIGR00959 ffh signal recognition particle protein

Probab=97.12  E-value=0.0012  Score=60.23  Aligned_cols=92  Identities=12%  Similarity=0.149  Sum_probs=53.2

Q ss_pred             EEEEEEeCCCcccccc-chh---hh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQD-HLP---VA--CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLP  204 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~-~~~---~~--~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~  204 (268)
                      +.+.|.||+|...... +..   .+  .-..+.+++|.|.+..   +++..+...+..   ...+ =+|.||.|-     
T Consensus       183 ~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tg---q~~~~~a~~f~~---~v~i~giIlTKlD~-----  251 (428)
T TIGR00959       183 FDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTG---QDAVNTAKTFNE---RLGLTGVVLTKLDG-----  251 (428)
T ss_pred             CCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccch---HHHHHHHHHHHh---hCCCCEEEEeCccC-----
Confidence            4688999999543211 111   11  2357889999998643   233333333332   2233 388999993     


Q ss_pred             ccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          205 IDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                       .   ...-.+...+...++|+.+++.  |+.++++
T Consensus       252 -~---~~~G~~lsi~~~~~~PI~fi~~--Ge~i~dl  281 (428)
T TIGR00959       252 -D---ARGGAALSVRSVTGKPIKFIGV--GEKIDDL  281 (428)
T ss_pred             -c---ccccHHHHHHHHHCcCEEEEeC--CCChhhC
Confidence             1   1123377778888888877654  4555543

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.07  E-value=0.0027  Score=61.67  Aligned_cols=104  Identities=15%  Similarity=0.162  Sum_probs=58.2

Q ss_pred             EEEEEEeCCCccccc-cc---hhhh--hcCCcEEEEEEeCCC-hhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQ-DH---LPVA--CKDSIAILFMFDLTS-RCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQL  203 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~-~~---~~~~--~~~a~~vilv~D~~~-~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~  203 (268)
                      ..+.|+||+|..... .+   ....  ....+-+++|.|.+. .+.+.++.+.+.   ... ...+ =+|.||.|-.   
T Consensus       264 ~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~~~f~---~~~-~~~i~glIlTKLDEt---  336 (767)
T PRK14723        264 KHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVVHAYR---HGA-GEDVDGCIITKLDEA---  336 (767)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHHHHHh---hcc-cCCCCEEEEeccCCC---
Confidence            458899999943221 11   1111  123456789999874 334443332222   111 1123 3899999931   


Q ss_pred             CccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH-HHH----HHHHHHHHhc
Q 041042          204 PIDLQWTIASQARAYAKALNATLFFSSATYNINV-NKI----LKFITAKLFD  250 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i-~~~----f~~l~~~i~~  250 (268)
                            ...-.+..+....++|+..++  +|++| +++    -+.+++.++.
T Consensus       337 ------~~~G~iL~i~~~~~lPI~yit--~GQ~VPdDL~~a~~~~lv~~ll~  380 (767)
T PRK14723        337 ------THLGPALDTVIRHRLPVHYVS--TGQKVPEHLELAQADELVDRAFA  380 (767)
T ss_pred             ------CCccHHHHHHHHHCCCeEEEe--cCCCChhhcccCCHHHHHHHHhc
Confidence                  123456677888888887764  57777 454    2345666665

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.01  E-value=0.0028  Score=64.07  Aligned_cols=108  Identities=16%  Similarity=0.116  Sum_probs=58.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcCCCCC--CC----CCCcceeeEEEEEEECCeEEEEEEEeCCCcc--------ccccchhh
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDEKEQ--GG----SPGEGLNMMDKTLLVRGARISYSIWEVTGDA--------KAQDHLPV  151 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~~~~--~~----~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~--------~~~~~~~~  151 (268)
                      .+|||.+|+||||++..- +..|.-  ..    ....|...+  .--+.   -.-.++||+|..        .....|..
T Consensus       128 y~viG~pgsGKTtal~~s-gl~Fpl~~~~~~~~~~~~gT~~c--dwwf~---deaVlIDtaGry~~q~s~~~~~~~~W~~  201 (1188)
T COG3523         128 YMVIGPPGSGKTTALLNS-GLQFPLAEQMGALGLAGPGTRNC--DWWFT---DEAVLIDTAGRYITQDSADEVDRAEWLG  201 (1188)
T ss_pred             eEEecCCCCCcchHHhcc-cccCcchhhhccccccCCCCccc--Ccccc---cceEEEcCCcceecccCcchhhHHHHHH
Confidence            679999999999998642 322211  10    111110011  11111   124578999832        12233443


Q ss_pred             h---------hcCCcEEEEEEeCCChhhH---------HHHHHHHHHHHHhCCCCce-EEEEeCCCC
Q 041042          152 A---------CKDSIAILFMFDLTSRCTL---------KSVIRWYQQARKCNQTAIP-IIIGTKFDD  199 (268)
Q Consensus       152 ~---------~~~a~~vilv~D~~~~~s~---------~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl  199 (268)
                      +         .+..|+||+..|+.+.-+-         ..++.=++++...-.-.+| .|+.||.|+
T Consensus       202 fL~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dl  268 (1188)
T COG3523         202 FLGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADL  268 (1188)
T ss_pred             HHHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccc
Confidence            3         3467999999998653221         1122334455554444445 599999998

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=97.01  E-value=0.00067  Score=55.97  Aligned_cols=123  Identities=15%  Similarity=0.197  Sum_probs=69.2

Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh----------hHHHHHHHHHHHHHh--CCCCceEEEEeCC
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC----------TLKSVIRWYQQARKC--NQTAIPIIIGTKF  197 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~----------s~~~~~~~~~~i~~~--~~~~~~ilvgnK~  197 (268)
                      +++.+.+.|.+||..-+.-|-+++++.-.++++..++..+          ..++-......+..+  -.+..+|+..||.
T Consensus       197 ~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLNKk  276 (359)
T KOG0085|consen  197 QKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKK  276 (359)
T ss_pred             hhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEechh
Confidence            4456778888888777777777777766666655443221          112212222222222  2466778999999


Q ss_pred             CCCC-C---------CCcc-chhchHHHHHHHHHHh----C-----C-eEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          198 DDFI-Q---------LPID-LQWTIASQARAYAKAL----N-----A-TLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       198 Dl~~-~---------~~~~-~~~~~~~~~~~~~~~~----~-----~-~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      ||.+ +         .|+- ......+.+++|.-+.    +     + --..+.|..-+||.-+|..+-..+++..
T Consensus       277 DlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~~  352 (359)
T KOG0085|consen  277 DLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLN  352 (359)
T ss_pred             hhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHhh
Confidence            9731 1         1110 0111123334443222    2     1 1244888888999999999888887654

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.99  E-value=0.0034  Score=56.45  Aligned_cols=139  Identities=18%  Similarity=0.250  Sum_probs=74.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC----CC-----CCC-CC-----------CCcceeeEEEE----E--EE---C-CeEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD----EK-----EQG-GS-----------PGEGLNMMDKT----L--LV---R-GARI  132 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~----~~-----~~~-~~-----------~t~~~~~~~~~----~--~~---~-~~~~  132 (268)
                      .+|+++|.+||||||++..+...    ..     ..+ +.           ...+..+....    +  .+   . ...+
T Consensus       242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~  321 (436)
T PRK11889        242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV  321 (436)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCC
Confidence            57999999999999999998531    00     000 00           00111111000    0  00   0 0135


Q ss_pred             EEEEEeCCCccccccc----hhhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCc
Q 041042          133 SYSIWEVTGDAKAQDH----LPVAC--KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPI  205 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~----~~~~~--~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~  205 (268)
                      .+.|.||+|.......    ...++  ...+.++||.|++-..  +.+..+++.+   .. ..+ =+|.||.|-.     
T Consensus       322 DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~--~d~~~i~~~F---~~-~~idglI~TKLDET-----  390 (436)
T PRK11889        322 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIITNF---KD-IHIDGIVFTKFDET-----  390 (436)
T ss_pred             CEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccCh--HHHHHHHHHh---cC-CCCCEEEEEcccCC-----
Confidence            6889999996442211    12222  2356788998875322  2333333333   32 223 4999999941     


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          206 DLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                          ...-.+..++...++|+..++  +|++|.+
T Consensus       391 ----~k~G~iLni~~~~~lPIsyit--~GQ~VPe  418 (436)
T PRK11889        391 ----ASSGELLKIPAVSSAPIVLMT--DGQDVKK  418 (436)
T ss_pred             ----CCccHHHHHHHHHCcCEEEEe--CCCCCCc
Confidence                123456677888888877764  4555443

>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=96.98  E-value=0.00075  Score=53.79  Aligned_cols=133  Identities=19%  Similarity=0.230  Sum_probs=64.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeC-CCccc-------------------
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV-TGDAK-------------------  144 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt-~G~~~-------------------  144 (268)
                      ||++.|.+|+|||||+++++..-- ....+.-  -|.+..+.-++..+-+.+.|. .|.+.                   
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~-~~~~~v~--Gf~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~   77 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELK-KKGLPVG--GFYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVD   77 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHH-HTCGGEE--EEEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhh-ccCCccc--eEEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEc
Confidence            689999999999999999865321 0111111  244455555666666666666 33211                   


Q ss_pred             ---ccc----chhhhhcCCcEEEEEEeC-CChhhHHHHHHHHHHHHHh-CCCCceEEEEeCC-CCCCCCCccchhchHHH
Q 041042          145 ---AQD----HLPVACKDSIAILFMFDL-TSRCTLKSVIRWYQQARKC-NQTAIPIIIGTKF-DDFIQLPIDLQWTIASQ  214 (268)
Q Consensus       145 ---~~~----~~~~~~~~a~~vilv~D~-~~~~s~~~~~~~~~~i~~~-~~~~~~ilvgnK~-Dl~~~~~~~~~~~~~~~  214 (268)
                         |..    .....+..++  ++|+|= .-.+-+  ...|.+.+... .++.+.|.+..+. +.             .-
T Consensus        78 ~e~fe~~~~~~L~~~~~~~~--liviDEIG~mEl~--~~~F~~~v~~~l~s~~~vi~vv~~~~~~-------------~~  140 (168)
T PF03266_consen   78 LESFEEIGLPALRNALSSSD--LIVIDEIGKMELK--SPGFREAVEKLLDSNKPVIGVVHKRSDN-------------PF  140 (168)
T ss_dssp             HHHHHCCCCCCCHHHHHCCH--EEEE---STTCCC---CHHHHHHHHHHCTTSEEEEE--SS--S-------------CC
T ss_pred             HHHHHHHHHHHHHhhcCCCC--EEEEeccchhhhc--CHHHHHHHHHHHcCCCcEEEEEecCCCc-------------HH
Confidence               111    1111123445  677772 111110  11334444333 2334445555555 41             22


Q ss_pred             HHHHHHHhCCeEEEEcCCCCcCH
Q 041042          215 ARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       215 ~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      ++++.+..++.+++++..+.+.+
T Consensus       141 l~~i~~~~~~~i~~vt~~NRd~l  163 (168)
T PF03266_consen  141 LEEIKRRPDVKIFEVTEENRDAL  163 (168)
T ss_dssp             HHHHHTTTTSEEEE--TTTCCCH
T ss_pred             HHHHHhCCCcEEEEeChhHHhhH
Confidence            56677777899999877766544

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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.98  E-value=0.0041  Score=57.53  Aligned_cols=102  Identities=18%  Similarity=0.179  Sum_probs=56.3

Q ss_pred             EEEEEeCCCcccccc-c--hhhhhcC---CcEEEEEEeCCC-hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCc
Q 041042          133 SYSIWEVTGDAKAQD-H--LPVACKD---SIAILFMFDLTS-RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPI  205 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~-~--~~~~~~~---a~~vilv~D~~~-~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~  205 (268)
                      .+.++||+|...... +  ....+..   ..-.++|.|.+- ...+.++      +..+....+--+|.||.|-      
T Consensus       336 d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~~~l~~i------~~~f~~~~~~g~IlTKlDe------  403 (484)
T PRK06995        336 HIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHGDTLNEV------VQAYRGPGLAGCILTKLDE------  403 (484)
T ss_pred             CeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcHHHHHHH------HHHhccCCCCEEEEeCCCC------
Confidence            577999999433221 1  1111111   123678888763 3333222      2223322223488899993      


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEEcCCCCcCH-HHH----HHHHHHHHhcC
Q 041042          206 DLQWTIASQARAYAKALNATLFFSSATYNINV-NKI----LKFITAKLFDI  251 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i-~~~----f~~l~~~i~~~  251 (268)
                         ....-.+..++...++++.+++  +|++| +++    -+.+++.++..
T Consensus       404 ---t~~~G~~l~i~~~~~lPI~yvt--~GQ~VPeDL~~a~~~~lv~~ll~~  449 (484)
T PRK06995        404 ---AASLGGALDVVIRYKLPLHYVS--NGQRVPEDLHLANKKFLLHRAFCA  449 (484)
T ss_pred             ---cccchHHHHHHHHHCCCeEEEe--cCCCChhhhccCCHHHHHHHHhcC
Confidence               1224556778888898887764  67777 554    23466666654

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.97  E-value=0.0049  Score=56.12  Aligned_cols=149  Identities=15%  Similarity=0.154  Sum_probs=79.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCc-----------------------ceeeEEEEEE-------ECCeEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE-----------------------GLNMMDKTLL-------VRGARIS  133 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~-----------------------~~~~~~~~~~-------~~~~~~~  133 (268)
                      -+++++|..||||||++..+.+..........+                       |+.+....-.       ..-....
T Consensus       192 ~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~~~d  271 (420)
T PRK14721        192 GVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELRGKH  271 (420)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhcCCC
Confidence            489999999999999999776421000000000                       1111000000       0012235


Q ss_pred             EEEEeCCCcccccc----chhhhh--cCCcEEEEEEeCCC-hhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCc
Q 041042          134 YSIWEVTGDAKAQD----HLPVAC--KDSIAILFMFDLTS-RCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPI  205 (268)
Q Consensus       134 l~i~Dt~G~~~~~~----~~~~~~--~~a~~vilv~D~~~-~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~  205 (268)
                      +.+.||+|......    ....+.  ....-.+||.|.+- .+.+.   .++..   +. ...+ =+|.||.|-.     
T Consensus       272 ~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~---~~~~~---f~-~~~~~~~I~TKlDEt-----  339 (420)
T PRK14721        272 MVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLD---EVISA---YQ-GHGIHGCIITKVDEA-----  339 (420)
T ss_pred             EEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHH---HHHHH---hc-CCCCCEEEEEeeeCC-----
Confidence            77999999554221    122222  12346788888873 33333   32222   22 2223 3999999941     


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEEcCCCCcCH-HHH----HHHHHHHHhc
Q 041042          206 DLQWTIASQARAYAKALNATLFFSSATYNINV-NKI----LKFITAKLFD  250 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i-~~~----f~~l~~~i~~  250 (268)
                          ...-.+..++...+.++..++  +|++| +++    -+.+++.++.
T Consensus       340 ----~~~G~~l~~~~~~~lPi~yvt--~Gq~VP~Dl~~a~~~~lv~~ll~  383 (420)
T PRK14721        340 ----ASLGIALDAVIRRKLVLHYVT--NGQKVPEDLHEANSRYLLHRIFK  383 (420)
T ss_pred             ----CCccHHHHHHHHhCCCEEEEE--CCCCchhhhhhCCHHHHHHHHhc
Confidence                224556777888888887764  56666 333    2345666665

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.97  E-value=0.0049  Score=57.52  Aligned_cols=112  Identities=13%  Similarity=0.159  Sum_probs=68.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC-----CCCCC-CCC----------cceeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE-----KEQGG-SPG----------EGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~-----~~~~~-~~t----------~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      .|-+.-.--+||||+-.+.+...     +.+.. ..+          -|.+..+-.....-.+..++++||||+-.|.-.
T Consensus        41 NIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~~~~iNiIDTPGHvDFT~E  120 (721)
T KOG0465|consen   41 NIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWRDYRINIIDTPGHVDFTFE  120 (721)
T ss_pred             ccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeeccceeEEecCCCceeEEEE
Confidence            45556666899999999875421     10000 000          122222222222223678999999999999888


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      ....++--|++++|.|....-.-+....|.+. +++  +.|-|...||.|-
T Consensus       121 VeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ~-~ry--~vP~i~FiNKmDR  168 (721)
T KOG0465|consen  121 VERALRVLDGAVLVLDAVAGVESQTETVWRQM-KRY--NVPRICFINKMDR  168 (721)
T ss_pred             ehhhhhhccCeEEEEEcccceehhhHHHHHHH-Hhc--CCCeEEEEehhhh
Confidence            88888999999999987554333444555543 333  3455777888883

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=96.96  E-value=0.0026  Score=53.45  Aligned_cols=89  Identities=16%  Similarity=0.285  Sum_probs=55.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc----c---chhhhhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ----D---HLPVACKD  155 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~----~---~~~~~~~~  155 (268)
                      -||-++|.|.||||||+..+.+..-. ..|.-|. .......+.+.+  -++++.|.+|.-+-.    .   ..-...+.
T Consensus        60 a~vg~vgFPSvGksTl~~~l~g~~s~vasyeftt-l~~vpG~~~y~g--aKiqlldlpgiiegakdgkgrg~qviavart  136 (358)
T KOG1487|consen   60 ARVGFVGFPSVGKSTLLSKLTGTFSEVAAYEFTT-LTTVPGVIRYKG--AKIQLLDLPGIIEGAKDGKGRGKQVIAVART  136 (358)
T ss_pred             eeeeEEecCccchhhhhhhhcCCCCcccccccee-EEEecceEeccc--cceeeecCcchhcccccCCCCccEEEEEeec
Confidence            58999999999999999998775421 2222211 111112222333  458899999843211    1   11223578


Q ss_pred             CcEEEEEEeCCChhhHHHHH
Q 041042          156 SIAILFMFDLTSRCTLKSVI  175 (268)
Q Consensus       156 a~~vilv~D~~~~~s~~~~~  175 (268)
                      |+.+++|.|+-.+-+...+.
T Consensus       137 cnli~~vld~~kp~~hk~~i  156 (358)
T KOG1487|consen  137 CNLIFIVLDVLKPLSHKKII  156 (358)
T ss_pred             ccEEEEEeeccCcccHHHHH
Confidence            99999999998887765554

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.94  E-value=0.0039  Score=55.78  Aligned_cols=92  Identities=14%  Similarity=0.156  Sum_probs=51.3

Q ss_pred             EEEEEEeCCCcccccc----chhhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCc
Q 041042          132 ISYSIWEVTGDAKAQD----HLPVACK--DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPI  205 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~----~~~~~~~--~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~  205 (268)
                      +.+.+.||+|......    ....+..  ..+.+++|.+.+  ....++...++   .+..-.+--+|.||.|-.     
T Consensus       286 ~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag--~~~~d~~~i~~---~f~~l~i~glI~TKLDET-----  355 (407)
T PRK12726        286 VDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSG--MKSADVMTILP---KLAEIPIDGFIITKMDET-----  355 (407)
T ss_pred             CCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCc--ccHHHHHHHHH---hcCcCCCCEEEEEcccCC-----
Confidence            5788999999744321    1122222  335666777653  22333333322   232222225999999941     


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          206 DLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                          ...-.+..++...+.|+..+|  +|++|.+
T Consensus       356 ----~~~G~~Lsv~~~tglPIsylt--~GQ~Vpd  383 (407)
T PRK12726        356 ----TRIGDLYTVMQETNLPVLYMT--DGQNITE  383 (407)
T ss_pred             ----CCccHHHHHHHHHCCCEEEEe--cCCCCCc
Confidence                224556777888888877765  4555553

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=96.91  E-value=0.041  Score=48.46  Aligned_cols=97  Identities=14%  Similarity=0.076  Sum_probs=51.8

Q ss_pred             EEEEEeCCCccccccchhhhhc--------CCcEEEEEEeCCChhhHHH-HHH-HHHHHHHhCCCCceEEEEeCCCCCCC
Q 041042          133 SYSIWEVTGDAKAQDHLPVACK--------DSIAILFMFDLTSRCTLKS-VIR-WYQQARKCNQTAIPIIIGTKFDDFIQ  202 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~~~~~~~--------~a~~vilv~D~~~~~s~~~-~~~-~~~~i~~~~~~~~~ilvgnK~Dl~~~  202 (268)
                      ...++.|.|-..-..+...+..        .-|++|-|+|+.+-..... +.. ...++.     ..-+||.||.||   
T Consensus        86 D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia-----~AD~ivlNK~Dl---  157 (323)
T COG0523          86 DRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLA-----FADVIVLNKTDL---  157 (323)
T ss_pred             CEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHH-----hCcEEEEecccC---
Confidence            3456777775443333333322        3478999999876543222 222 222221     123899999998   


Q ss_pred             CCccchhchHHHHHHHHHHh--CCeEEEEcCCCCcCHHHHHH
Q 041042          203 LPIDLQWTIASQARAYAKAL--NATLFFSSATYNINVNKILK  242 (268)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      ..++    ..+..+...+..  .++++.+|. .+....+++.
T Consensus       158 v~~~----~l~~l~~~l~~lnp~A~i~~~~~-~~~~~~~ll~  194 (323)
T COG0523         158 VDAE----ELEALEARLRKLNPRARIIETSY-GDVDLAELLD  194 (323)
T ss_pred             CCHH----HHHHHHHHHHHhCCCCeEEEccc-cCCCHHHhhc
Confidence            3322    134445555555  367788776 3334444443

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=96.86  E-value=0.015  Score=53.82  Aligned_cols=65  Identities=14%  Similarity=0.036  Sum_probs=41.2

Q ss_pred             EEEEEeCCCcc-------------ccccchhhhhcCCcEEEEEEeCCChhh-HHHHHHHHHHHHHhCCCCc-eEEEEeCC
Q 041042          133 SYSIWEVTGDA-------------KAQDHLPVACKDSIAILFMFDLTSRCT-LKSVIRWYQQARKCNQTAI-PIIIGTKF  197 (268)
Q Consensus       133 ~l~i~Dt~G~~-------------~~~~~~~~~~~~a~~vilv~D~~~~~s-~~~~~~~~~~i~~~~~~~~-~ilvgnK~  197 (268)
                      ++.+.|.+|--             ....+...|+.+.+++|+|+--.+.+. -.++....   ....|... -|+|.+|.
T Consensus       413 RMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAERSnVTDLV---sq~DP~GrRTIfVLTKV  489 (980)
T KOG0447|consen  413 RMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAERSIVTDLV---SQMDPHGRRTIFVLTKV  489 (980)
T ss_pred             eeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchhhhhHHHHH---HhcCCCCCeeEEEEeec
Confidence            46688988821             234577889999999999985333332 22333333   33344333 38999999


Q ss_pred             CCC
Q 041042          198 DDF  200 (268)
Q Consensus       198 Dl~  200 (268)
                      ||.
T Consensus       490 DlA  492 (980)
T KOG0447|consen  490 DLA  492 (980)
T ss_pred             chh
Confidence            984

>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=96.84  E-value=0.0057  Score=46.21  Aligned_cols=24  Identities=21%  Similarity=0.259  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      --+++.|++|+|||+|++.+...-
T Consensus        20 ~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          20 KNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999987654

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.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.79  E-value=0.012  Score=47.23  Aligned_cols=86  Identities=16%  Similarity=0.143  Sum_probs=47.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEe--CC-CccccccchhhhhcCCcEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWE--VT-GDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D--t~-G~~~~~~~~~~~~~~a~~vi  160 (268)
                      =.++++|..|+|||||++.+.+-..     ++-|      .+.+++..+.+..-+  .+ |+.+--.+....+.+.+.++
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~~-----p~~G------~i~~~g~~i~~~~q~~~LSgGq~qrv~laral~~~p~lll   94 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQLI-----PNGD------NDEWDGITPVYKPQYIDLSGGELQRVAIAAALLRNATFYL   94 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCCC-----CCCc------EEEECCEEEEEEcccCCCCHHHHHHHHHHHHHhcCCCEEE
Confidence            3789999999999999999877532     2222      122333332221111  22 33333345555666666544


Q ss_pred             EEEe----CCChhhHHHHHHHHHHHH
Q 041042          161 FMFD----LTSRCTLKSVIRWYQQAR  182 (268)
Q Consensus       161 lv~D----~~~~~s~~~~~~~~~~i~  182 (268)
                      +  |    .-|..+-+.+..++.++.
T Consensus        95 L--DEPts~LD~~~~~~l~~~l~~~~  118 (177)
T cd03222          95 F--DEPSAYLDIEQRLNAARAIRRLS  118 (177)
T ss_pred             E--ECCcccCCHHHHHHHHHHHHHHH
Confidence            4  4    234455556666666554

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>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=96.76  E-value=0.0058  Score=44.70  Aligned_cols=101  Identities=9%  Similarity=0.091  Sum_probs=59.1

Q ss_pred             EEEc-CCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeC
Q 041042           87 SLLG-DCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDL  165 (268)
Q Consensus        87 ~vlG-~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~  165 (268)
                      +++| ..|+||||+...+...--......+.-.|...     ... ..+.+.|+++...  ......+..+|.++++.+.
T Consensus         3 ~~~~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~d~-----~~~-~D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~   74 (106)
T cd03111           3 AFIGAKGGVGATTLAANLAVALAKEAGRRVLLVDLDL-----QFG-DDYVVVDLGRSLD--EVSLAALDQADRVFLVTQQ   74 (106)
T ss_pred             EEECCCCCCcHHHHHHHHHHHHHhcCCCcEEEEECCC-----CCC-CCEEEEeCCCCcC--HHHHHHHHHcCeEEEEecC
Confidence            3444 57899999877664321101011211111111     011 1588999998643  3344567889999999876


Q ss_pred             CChhhHHHHHHHHHHHHHhCCC--CceEEEEeC
Q 041042          166 TSRCTLKSVIRWYQQARKCNQT--AIPIIIGTK  196 (268)
Q Consensus       166 ~~~~s~~~~~~~~~~i~~~~~~--~~~ilvgnK  196 (268)
                      + ..++..+..+++.+++....  ....+|.|+
T Consensus        75 ~-~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          75 D-LPSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             C-hHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            4 66777777777777765433  233477775

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.

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=96.71  E-value=0.033  Score=49.06  Aligned_cols=95  Identities=15%  Similarity=0.046  Sum_probs=48.8

Q ss_pred             EEEEEEeCCCccccccchhhhhc--------CCcEEEEEEeCCChhhHH-HHHHHHHHHHHhCCCCceEEEEeCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACK--------DSIAILFMFDLTSRCTLK-SVIRWYQQARKCNQTAIPIIIGTKFDDFIQ  202 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~--------~a~~vilv~D~~~~~s~~-~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~  202 (268)
                      ....+.+|.|......+...++.        ..+++|.|+|+.+..... .......++.     ..-+||.||+|+   
T Consensus        91 ~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~-----~AD~IvlnK~Dl---  162 (318)
T PRK11537         91 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVG-----YADRILLTKTDV---  162 (318)
T ss_pred             CCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHH-----hCCEEEEecccc---
Confidence            34567778886554444444322        237899999986533211 1111122222     123899999997   


Q ss_pred             CCccchhchHHHHHHHHHHh--CCeEEEEcCCCCcCHHHHH
Q 041042          203 LPIDLQWTIASQARAYAKAL--NATLFFSSATYNINVNKIL  241 (268)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~~f  241 (268)
                      .++      .+.+.+..+..  .+++++++ ........+|
T Consensus       163 ~~~------~~~~~~~l~~lnp~a~i~~~~-~~~v~~~~l~  196 (318)
T PRK11537        163 AGE------AEKLRERLARINARAPVYTVV-HGDIDLSLLF  196 (318)
T ss_pred             CCH------HHHHHHHHHHhCCCCEEEEec-cCCCCHHHHh
Confidence            222      13445555544  35566544 2223344444

>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=96.68  E-value=0.0015  Score=48.61  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +|+|.|.+||||||+.+.+...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998664

...

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=96.67  E-value=0.0066  Score=54.09  Aligned_cols=162  Identities=10%  Similarity=0.062  Sum_probs=91.1

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC------------------CCCC-----CCCCc------ceeeEEEEEEECCeE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE------------------KEQG-----GSPGE------GLNMMDKTLLVRGAR  131 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~------------------~~~~-----~~~t~------~~~~~~~~~~~~~~~  131 (268)
                      ...++++++|.--+||||+-..+....                  -.+.     +..|.      |.+.......+....
T Consensus        77 k~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FEte~  156 (501)
T KOG0459|consen   77 KEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFETEN  156 (501)
T ss_pred             CCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEEEecc
Confidence            446899999999999999866553210                  0000     00010      111111111122334


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh---hHHHHHHHHHHHH--HhCCCCceEEEEeCCCCCC-CCCc
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC---TLKSVIRWYQQAR--KCNQTAIPIIIGTKFDDFI-QLPI  205 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~---s~~~~~~~~~~i~--~~~~~~~~ilvgnK~Dl~~-~~~~  205 (268)
                      -++.+.|.+|+..|-.-.-.-..+||..++|.++-..+   .|+.=-+..+...  +-..-.-.|++.||.|-+. +.+.
T Consensus       157 ~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~gv~~lVv~vNKMddPtvnWs~  236 (501)
T KOG0459|consen  157 KRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVNWSN  236 (501)
T ss_pred             eeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhccceEEEEEEeccCCccCcch
Confidence            56889999999887543333345788888888763211   2332212222221  1122233478999999642 2333


Q ss_pred             cchhchHHHHHHHHHHhC------CeEEEEcCCCCcCHHHHHH
Q 041042          206 DLQWTIASQARAYAKALN------ATLFFSSATYNINVNKILK  242 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~------~~~~~~Sa~~~~~i~~~f~  242 (268)
                      ++-....+.+..|.+..|      ..|+.+|..+|.++.+.-.
T Consensus       237 eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  237 ERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             hhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence            333444667777777555      3589999999999987653

>PRK08118 topology modulation protein; Reviewed

Probab=96.63  E-value=0.0016  Score=51.91  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -||+|+|.+|+|||||.+.+...
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            38999999999999999988654

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.63  E-value=0.0059  Score=55.43  Aligned_cols=24  Identities=21%  Similarity=0.392  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..+|+|+|.+|+|||||++.|...
T Consensus       219 ~~~IvI~G~~gsGKTTL~~~La~~  242 (399)
T PRK08099        219 VRTVAILGGESSGKSTLVNKLANI  242 (399)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999998754

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.62  E-value=0.015  Score=53.26  Aligned_cols=103  Identities=12%  Similarity=0.154  Sum_probs=57.9

Q ss_pred             EEEEEEeCCCccccc----cchhhhhc---CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQ----DHLPVACK---DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQL  203 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~----~~~~~~~~---~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~  203 (268)
                      +.+.++||+|.....    .....++.   ...-+++|.+.+-..  ..+...+..+   . ...+ =+|.||.|-    
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~--~~l~~~~~~f---~-~~~~~~vI~TKlDe----  369 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKY--EDLKDIYKHF---S-RLPLDGLIFTKLDE----  369 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCH--HHHHHHHHHh---C-CCCCCEEEEecccc----
Confidence            568899999965432    12223333   234667788875321  2233322222   2 2223 499999993    


Q ss_pred             CccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH-HHH----HHHHHHHHhcC
Q 041042          204 PIDLQWTIASQARAYAKALNATLFFSSATYNINV-NKI----LKFITAKLFDI  251 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i-~~~----f~~l~~~i~~~  251 (268)
                           ......+..++...+.++..++  +|++| +++    -+.+++.++..
T Consensus       370 -----t~~~G~i~~~~~~~~lPv~yit--~Gq~VpdDl~~a~~~~l~~~ll~~  415 (424)
T PRK05703        370 -----TSSLGSILSLLIESGLPISYLT--NGQRVPDDIKVANPEELVRLLLGG  415 (424)
T ss_pred             -----cccccHHHHHHHHHCCCEEEEe--CCCCChhhhhhCCHHHHHHHHhcc
Confidence                 2224467788888899887765  56665 333    23455555544

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=96.62  E-value=0.0041  Score=53.61  Aligned_cols=58  Identities=14%  Similarity=0.252  Sum_probs=36.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC------CCCCCCCcceeeEEEE-EEECCeEEEEEEEeCCCc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK------EQGGSPGEGLNMMDKT-LLVRGARISYSIWEVTGD  142 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~------~~~~~~t~~~~~~~~~-~~~~~~~~~l~i~Dt~G~  142 (268)
                      .++.+.|+|-||||||||+|.+.....      .....|  |++..... +.+.... .+.+.||+|.
T Consensus       142 ~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~p--GVT~~V~~~iri~~rp-~vy~iDTPGi  206 (335)
T KOG2485|consen  142 SEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEP--GVTRRVSERIRISHRP-PVYLIDTPGI  206 (335)
T ss_pred             CceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCC--CceeeehhheEeccCC-ceEEecCCCc
Confidence            468999999999999999998754321      222333  33332222 3332222 2668999993

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=96.62  E-value=0.0056  Score=55.98  Aligned_cols=111  Identities=14%  Similarity=0.249  Sum_probs=71.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC------------CCCCCCC--CCcceeeEEEEEEE----------------CCeEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD------------EKEQGGS--PGEGLNMMDKTLLV----------------RGARISY  134 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~------------~~~~~~~--~t~~~~~~~~~~~~----------------~~~~~~l  134 (268)
                      ++.++..-.-|||||...|+..            .|.....  ..-|.+..+..+..                ++..+.+
T Consensus        21 NmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~~~FLi  100 (842)
T KOG0469|consen   21 NMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDGNGFLI  100 (842)
T ss_pred             cceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCCcceeE
Confidence            5667777788999999888642            1211110  01122222222221                4567889


Q ss_pred             EEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          135 SIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       135 ~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      +++|.+|+-.|.+.....++-.|+.++|+|.-+.---+.-....+.+   .....|+++.||.|
T Consensus       101 NLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~---~ERIkPvlv~NK~D  161 (842)
T KOG0469|consen  101 NLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAI---AERIKPVLVMNKMD  161 (842)
T ss_pred             EeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHH---HhhccceEEeehhh
Confidence            99999999999999999999999999999976532111111112222   23567899999999

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.59  E-value=0.011  Score=53.68  Aligned_cols=132  Identities=14%  Similarity=0.159  Sum_probs=69.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC-CC---------CC------------CCCCcceeeEEEE-E-----EECCeEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE-KE---------QG------------GSPGEGLNMMDKT-L-----LVRGARISYS  135 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~-~~---------~~------------~~~t~~~~~~~~~-~-----~~~~~~~~l~  135 (268)
                      .-++++|.+||||||++.+|...- ..         .+            +....+..+.... .     .+....+.+.
T Consensus       224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~~~~D~V  303 (432)
T PRK12724        224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLARDGSELI  303 (432)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHhCCCCEE
Confidence            468899999999999999886421 00         00            0001122221100 0     0011244678


Q ss_pred             EEeCCCccccc-c---chhhhhc-----CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCc
Q 041042          136 IWEVTGDAKAQ-D---HLPVACK-----DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPI  205 (268)
Q Consensus       136 i~Dt~G~~~~~-~---~~~~~~~-----~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~  205 (268)
                      ++||+|..... .   ....+++     ...-.+||.|++-..  +.+...+   ..+. ...+ =+|.||.|-.     
T Consensus       304 LIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~--~~~~~~~---~~f~-~~~~~glIlTKLDEt-----  372 (432)
T PRK12724        304 LIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSY--HHTLTVL---KAYE-SLNYRRILLTKLDEA-----  372 (432)
T ss_pred             EEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCH--HHHHHHH---HHhc-CCCCCEEEEEcccCC-----
Confidence            99999964321 1   1122222     234678899976543  2222222   2222 2223 4999999931     


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEEc
Q 041042          206 DLQWTIASQARAYAKALNATLFFSS  230 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~S  230 (268)
                          ...-.+..++...+.|+..++
T Consensus       373 ----~~~G~il~i~~~~~lPI~ylt  393 (432)
T PRK12724        373 ----DFLGSFLELADTYSKSFTYLS  393 (432)
T ss_pred             ----CCccHHHHHHHHHCCCEEEEe
Confidence                123446677778888876664

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=96.53  E-value=0.015  Score=40.84  Aligned_cols=76  Identities=14%  Similarity=0.188  Sum_probs=46.6

Q ss_pred             EEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc-hhhhhcCCcEEEEEEe
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH-LPVACKDSIAILFMFD  164 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~a~~vilv~D  164 (268)
                      +++.|.+|+|||++...+...--..      |.    +...++    .+.+.|+++....... .......+|.++++.+
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~------g~----~v~~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~   67 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKR------GK----RVLLID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTT   67 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC------CC----eEEEEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecC
Confidence            6788999999999988775431110      11    112223    5789999986542221 1455678899999998


Q ss_pred             CCChhhHHHHHH
Q 041042          165 LTSRCTLKSVIR  176 (268)
Q Consensus       165 ~~~~~s~~~~~~  176 (268)
                      ... .+......
T Consensus        68 ~~~-~~~~~~~~   78 (99)
T cd01983          68 PEA-LAVLGARR   78 (99)
T ss_pred             Cch-hhHHHHHH
Confidence            753 33444433

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK07261 topology modulation protein; Provisional

Probab=96.53  E-value=0.002  Score=51.41  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ||+|+|.+|+|||||.+.+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999998643

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=96.52  E-value=0.069  Score=47.53  Aligned_cols=21  Identities=19%  Similarity=0.305  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+|.|.-|+|||||+++++..
T Consensus         7 ~iltGFLGaGKTTll~~ll~~   27 (341)
T TIGR02475         7 TIVTGFLGAGKTTLIRHLLQN   27 (341)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            568899999999999999754

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.52  E-value=0.0019  Score=51.03  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=17.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ||+|.|.+++|||||++.|...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7999999999999999999754

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.51  E-value=0.0021  Score=51.72  Aligned_cols=23  Identities=26%  Similarity=0.469  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .||+|+|.||+||||+..++...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999999776

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.48  E-value=0.03  Score=50.58  Aligned_cols=106  Identities=10%  Similarity=0.081  Sum_probs=58.8

Q ss_pred             EEEEEEEeCCCcccccc----chhhhhcCC--c-EEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCC
Q 041042          131 RISYSIWEVTGDAKAQD----HLPVACKDS--I-AILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL  203 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~----~~~~~~~~a--~-~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~  203 (268)
                      .+.+.+.||+|......    -...++...  + -++||.|++..  ...+...+   .++..-.+-=+|.||.|-    
T Consensus       254 ~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~--~~~~~~~~---~~~~~~~~~~~I~TKlDe----  324 (388)
T PRK12723        254 DFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK--TSDVKEIF---HQFSPFSYKTVIFTKLDE----  324 (388)
T ss_pred             CCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC--HHHHHHHH---HHhcCCCCCEEEEEeccC----
Confidence            45688999999654321    112233322  3 57899998764  23333333   333222222499999993    


Q ss_pred             CccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH-HHHH----HHHHHHHhcCc
Q 041042          204 PIDLQWTIASQARAYAKALNATLFFSSATYNINV-NKIL----KFITAKLFDIP  252 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i-~~~f----~~l~~~i~~~~  252 (268)
                           ....-.+..++...+.|+..++  +|++| +++-    ..+++.++.-.
T Consensus       325 -----t~~~G~~l~~~~~~~~Pi~yit--~Gq~vPeDl~~~~~~~~~~~l~g~~  371 (388)
T PRK12723        325 -----TTCVGNLISLIYEMRKEVSYVT--DGQIVPHNISIAEPLTFIKKINGYR  371 (388)
T ss_pred             -----CCcchHHHHHHHHHCCCEEEEe--CCCCChhhhhhCCHHHHHHHhcCCC
Confidence                 1223456677788888876664  56666 4442    23455554443

>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=96.46  E-value=0.0023  Score=49.07  Aligned_cols=20  Identities=25%  Similarity=0.348  Sum_probs=18.4

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |+++|.+|+|||||++++..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68999999999999999864

...

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=96.43  E-value=0.03  Score=44.77  Aligned_cols=86  Identities=14%  Similarity=0.045  Sum_probs=59.8

Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchh
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQW  209 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~  209 (268)
                      ..+.+.++||++...  ......+..+|.++++...+ ..+...+..+++.+++.+  .+..+|.||.|..        .
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~-~~~~~~~~~~~~~l~~~~--~~~~vV~N~~~~~--------~  157 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPT-PSGLHDLERAVELVRHFG--IPVGVVINKYDLN--------D  157 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCC-cccHHHHHHHHHHHHHcC--CCEEEEEeCCCCC--------c
Confidence            356788999997543  23345678899999999876 456677777777776543  3345999999941        1


Q ss_pred             chHHHHHHHHHHhCCeEEE
Q 041042          210 TIASQARAYAKALNATLFF  228 (268)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~  228 (268)
                      ...+++.+++++.+++++.
T Consensus       158 ~~~~~~~~~~~~~~~~vl~  176 (179)
T cd03110         158 EIAEEIEDYCEEEGIPILG  176 (179)
T ss_pred             chHHHHHHHHHHcCCCeEE
Confidence            2345677788888887764

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

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.43  E-value=0.023  Score=48.84  Aligned_cols=138  Identities=18%  Similarity=0.209  Sum_probs=74.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC----C-----CCC------------CCCCcceeeEEEEEE----------E-CCeE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE----K-----EQG------------GSPGEGLNMMDKTLL----------V-RGAR  131 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~----~-----~~~------------~~~t~~~~~~~~~~~----------~-~~~~  131 (268)
                      -+++++|.+|+||||++..+...-    .     ..+            +....+..+... ..          . ....
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~-~~~~~l~~~l~~l~~~~~  154 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAV-RDEAAMTRALTYFKEEAR  154 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEec-CCHHHHHHHHHHHHhcCC
Confidence            599999999999999988774321    0     000            111111111100 00          0 0124


Q ss_pred             EEEEEEeCCCcccccc-c---hhhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCc
Q 041042          132 ISYSIWEVTGDAKAQD-H---LPVAC--KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPI  205 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~-~---~~~~~--~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~  205 (268)
                      +.+.++||+|...... .   ...++  ...+-+++|.|++-..  +++..++.   .+..-.+-=+|.||.|-.     
T Consensus       155 ~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~--~d~~~~~~---~f~~~~~~~~I~TKlDet-----  224 (270)
T PRK06731        155 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIIT---NFKDIHIDGIVFTKFDET-----  224 (270)
T ss_pred             CCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCH--HHHHHHHH---HhCCCCCCEEEEEeecCC-----
Confidence            5788999999654221 1   11222  2346789999976322  22333333   333322224999999941     


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          206 DLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                        .  ..-.+-.++...+.|+..++  +|++|.
T Consensus       225 --~--~~G~~l~~~~~~~~Pi~~it--~Gq~vp  251 (270)
T PRK06731        225 --A--SSGELLKIPAVSSAPIVLMT--DGQDVK  251 (270)
T ss_pred             --C--CccHHHHHHHHHCcCEEEEe--CCCCCC
Confidence              1  23446667778888877764  455554

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.37  E-value=0.0028  Score=53.03  Aligned_cols=22  Identities=27%  Similarity=0.460  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      =|+++|++|||||||++-+.+-
T Consensus        31 fvsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988763

>smart00072 GuKc Guanylate kinase homologues

Probab=96.34  E-value=0.02  Score=46.11  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=20.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcCC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      |+++|++||||+||++++....
T Consensus         5 ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        5 IVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            7899999999999999998763

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>KOG2484 consensus GTPase [General function prediction only]

Probab=96.32  E-value=0.0046  Score=54.94  Aligned_cols=58  Identities=14%  Similarity=0.306  Sum_probs=40.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD  142 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~  142 (268)
                      -...+.+-|+|-|||||||+||+|..... .....|  |++..-..+..+   -.+.+.|.+|.
T Consensus       249 lk~sIrvGViG~PNVGKSSvINsL~~~k~C~vg~~p--GvT~smqeV~Ld---k~i~llDsPgi  307 (435)
T KOG2484|consen  249 LKTSIRVGIIGYPNVGKSSVINSLKRRKACNVGNVP--GVTRSMQEVKLD---KKIRLLDSPGI  307 (435)
T ss_pred             cCcceEeeeecCCCCChhHHHHHHHHhccccCCCCc--cchhhhhheecc---CCceeccCCce
Confidence            35569999999999999999999988764 333444  444333444433   23668999983

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=96.26  E-value=0.26  Score=39.13  Aligned_cols=141  Identities=15%  Similarity=0.122  Sum_probs=92.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ......|+++|..+.++..|...+....-.          +. ..+..-. .    +-+ +.  .....    -...|.|
T Consensus        12 ~ln~atiLLVg~e~~~~~~LA~a~l~~~~~----------~~-l~Vh~a~-s----LPL-p~--e~~~l----RprIDlI   68 (176)
T PF11111_consen   12 ELNTATILLVGTEEALLQQLAEAMLEEDKE----------FK-LKVHLAK-S----LPL-PS--ENNNL----RPRIDLI   68 (176)
T ss_pred             CcceeEEEEecccHHHHHHHHHHHHhhccc----------ee-EEEEEec-c----CCC-cc--cccCC----CceeEEE
Confidence            455689999999999999999998763210          11 1110000 0    000 00  00111    1356999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      ++++|..+.-|++.++.-+..+........+.++++-...     ++...+..+++.+++..+.++++.+--.+.++...
T Consensus        69 VFvinl~sk~SL~~ve~SL~~vd~~fflGKVCfl~t~a~~-----~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~~~  143 (176)
T PF11111_consen   69 VFVINLHSKYSLQSVEASLSHVDPSFFLGKVCFLATNAGR-----ESHCSVHPNEVRKLAATYNSPLLFADLENEEGRTS  143 (176)
T ss_pred             EEEEecCCcccHHHHHHHHhhCChhhhccceEEEEcCCCc-----ccccccCHHHHHHHHHHhCCCEEEeecccchHHHH
Confidence            9999999999999999877777554444455445544442     13344558999999999999999998888877777


Q ss_pred             HHHHHHHHH
Q 041042          240 ILKFITAKL  248 (268)
Q Consensus       240 ~f~~l~~~i  248 (268)
                      +-+.|.+.+
T Consensus       144 lAqRLL~~l  152 (176)
T PF11111_consen  144 LAQRLLRML  152 (176)
T ss_pred             HHHHHHHHH
Confidence            666666544

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.24  E-value=0.0038  Score=47.48  Aligned_cols=23  Identities=22%  Similarity=0.394  Sum_probs=20.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .++|+|..|+|||||++.+.+..
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEEccCCCccccceeeecccc
Confidence            68999999999999999886653

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=96.24  E-value=0.017  Score=46.22  Aligned_cols=42  Identities=12%  Similarity=0.048  Sum_probs=25.6

Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          157 IAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       157 ~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      |++++|.|+.++.+-.+ ..+.+.+.....+.|.|+|.||+||
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~l~~~~kp~IlVlNK~DL   42 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVLQAGGNKKLVLVLNKIDL   42 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHHhccCCCCEEEEEehhhc
Confidence            78999999987643211 1222222111234567899999997

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

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.16  E-value=0.0056  Score=40.08  Aligned_cols=21  Identities=19%  Similarity=0.253  Sum_probs=18.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -.+|.|+.|+|||||+..+.-
T Consensus        25 ~tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            388999999999999988743

>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=96.14  E-value=0.0049  Score=41.30  Aligned_cols=21  Identities=24%  Similarity=0.422  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |++.|.+|+||||+.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999988654

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.

>PRK06217 hypothetical protein; Validated

Probab=96.05  E-value=0.0057  Score=49.31  Aligned_cols=23  Identities=17%  Similarity=0.304  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .||+|+|.+|+|||||.++|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999998653

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.03  E-value=0.02  Score=43.63  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|++.|+.|+|||||++.+...
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            5889999999999999998775

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

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

Probab=96.03  E-value=0.0051  Score=46.13  Aligned_cols=21  Identities=29%  Similarity=0.251  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |++.|++|+|||++++.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            689999999999999998664

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

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.02  E-value=0.0064  Score=45.45  Aligned_cols=25  Identities=20%  Similarity=0.190  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK  108 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~  108 (268)
                      -.++++|++|+|||+++..+...-.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC
Confidence            3689999999999999999977654

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.

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=96.02  E-value=0.064  Score=44.72  Aligned_cols=101  Identities=10%  Similarity=0.130  Sum_probs=62.5

Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHH--HHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccch
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV--IRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQ  208 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~--~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~  208 (268)
                      +.+.|.|+.|...  .+....+..+|.+|+=.-.+..+.-+.+  .+|+.++.+.....+| -|+.|+..-      ...
T Consensus        84 ~d~VlvDleG~as--~~~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~~~~~~ip~~Vl~Tr~~~------~~~  155 (231)
T PF07015_consen   84 FDFVLVDLEGGAS--ELNDYAIARSDLVLIPMQPSQLDADEAAKTFKWVRRLEKAERRDIPAAVLFTRVPA------ARL  155 (231)
T ss_pred             CCEEEEeCCCCCc--hhHHHHHHHCCEEEECCCCChHHHHHHHHHHHHHHHHHHhhCCCCCeeEEEecCCc------chh
Confidence            5688999988644  3345566789999988776644433222  2566655544444455 599999872      112


Q ss_pred             hchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          209 WTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      ......+.++.+  ++++|.+.-.......++|.
T Consensus       156 ~~~~~~~~e~~~--~lpvl~t~l~eR~Af~~m~~  187 (231)
T PF07015_consen  156 TRAQRIISEQLE--SLPVLDTELHERDAFRAMFS  187 (231)
T ss_pred             hHHHHHHHHHHh--cCCccccccccHHHHHHHHH
Confidence            222333344443  48888888887777777766

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 [].

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=95.91  E-value=0.0065  Score=45.36  Aligned_cols=21  Identities=24%  Similarity=0.265  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+|.|.+||||||+++.|...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998654

...

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.90  E-value=0.013  Score=48.09  Aligned_cols=18  Identities=28%  Similarity=0.504  Sum_probs=16.5

Q ss_pred             EEEEcCCCChHHHHHHHH
Q 041042           86 ISLLGDCHIGKTSFLEKY  103 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l  103 (268)
                      .+++|++|||||||++.|
T Consensus        36 TAlIGPSGcGKST~LR~l   53 (253)
T COG1117          36 TALIGPSGCGKSTLLRCL   53 (253)
T ss_pred             EEEECCCCcCHHHHHHHH
Confidence            469999999999999887

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=95.90  E-value=0.0068  Score=50.43  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|+|+|++|+|||||++-+-+-
T Consensus        33 ~vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4889999999999999987553

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.88  E-value=0.0069  Score=48.96  Aligned_cols=22  Identities=32%  Similarity=0.342  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|.+|+|||||++.+.+.
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            6899999999999999999654

>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=95.87  E-value=0.0066  Score=46.38  Aligned_cols=20  Identities=25%  Similarity=0.408  Sum_probs=18.3

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |+++|++|+|||+|++.+..
T Consensus         2 vlL~G~~G~GKt~l~~~la~   21 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAA   21 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            79999999999999998764

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.

>PLN03025 replication factor C subunit; Provisional

Probab=95.87  E-value=0.062  Score=47.33  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .+++.|++|+||||++..+...-
T Consensus        36 ~lll~Gp~G~GKTtla~~la~~l   58 (319)
T PLN03025         36 NLILSGPPGTGKTTSILALAHEL   58 (319)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            48899999999999999886653

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.85  E-value=0.0075  Score=46.30  Aligned_cols=21  Identities=29%  Similarity=0.619  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+|+|++|+|||||++.+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999764

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=95.83  E-value=0.043  Score=46.40  Aligned_cols=69  Identities=16%  Similarity=0.247  Sum_probs=46.5

Q ss_pred             EEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh-------hHHHHHH---HHHHHHHh--CCCCceEEEEeCCC
Q 041042          131 RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC-------TLKSVIR---WYQQARKC--NQTAIPIIIGTKFD  198 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~-------s~~~~~~---~~~~i~~~--~~~~~~ilvgnK~D  198 (268)
                      .+.++++|.+||..-+.-|-+++.+..++|+|...++..       +-..+++   ....+..+  -....+||..||.|
T Consensus       201 kv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKqD  280 (379)
T KOG0099|consen  201 KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQD  280 (379)
T ss_pred             ccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHHH
Confidence            466899999999998899999999999999999876421       1112222   22222111  11334578999999


Q ss_pred             C
Q 041042          199 D  199 (268)
Q Consensus       199 l  199 (268)
                      |
T Consensus       281 l  281 (379)
T KOG0099|consen  281 L  281 (379)
T ss_pred             H
Confidence            6

>PRK01889 GTPase RsgA; Reviewed

Probab=95.81  E-value=0.011  Score=52.96  Aligned_cols=23  Identities=26%  Similarity=0.686  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+++++|.+|+|||||++.+.+.
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~  218 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGE  218 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHh
Confidence            47999999999999999999874

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.80  E-value=0.0073  Score=48.33  Aligned_cols=22  Identities=23%  Similarity=0.324  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|.+|||||||++.+...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998664

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.77  E-value=0.0079  Score=48.76  Aligned_cols=21  Identities=33%  Similarity=0.539  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -|+++|++|||||||+|-+.+
T Consensus        33 ~vv~lGpSGcGKTTLLnl~AG   53 (259)
T COG4525          33 LVVVLGPSGCGKTTLLNLIAG   53 (259)
T ss_pred             EEEEEcCCCccHHHHHHHHhc
Confidence            588999999999999998765

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.77  E-value=0.0071  Score=46.65  Aligned_cols=22  Identities=23%  Similarity=0.548  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .|.|+|..|+|||||+..+++.
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~   23 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINE   23 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998764

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=95.77  E-value=0.0077  Score=53.13  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=19.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ++++|++|||||||++.+.+-
T Consensus        32 ~vllGPSGcGKSTlLr~IAGL   52 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGL   52 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998763

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.76  E-value=0.0096  Score=48.24  Aligned_cols=22  Identities=9%  Similarity=0.176  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      =|+|+|++|||||||++++...
T Consensus         6 ~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          6 LFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            3889999999999999999875

>PRK03839 putative kinase; Provisional

Probab=95.76  E-value=0.0077  Score=48.31  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +|+|+|.+|+||||+.+++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999988654

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=95.69  E-value=0.065  Score=48.67  Aligned_cols=24  Identities=25%  Similarity=0.610  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-+|+|+|+.|||||||+.-+++.
T Consensus       613 dSRiaIVGPNGVGKSTlLkLL~Gk  636 (807)
T KOG0066|consen  613 DSRIAIVGPNGVGKSTLLKLLIGK  636 (807)
T ss_pred             cceeEEECCCCccHHHHHHHHhcC
Confidence            358999999999999999988764

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.68  E-value=0.0094  Score=47.67  Aligned_cols=22  Identities=18%  Similarity=0.462  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .|+|+|.+|+|||||++.+...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            5889999999999999999874

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=95.66  E-value=0.0084  Score=47.84  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=16.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      --++|.|.+|+|||+|++++..
T Consensus        25 ~~~ll~G~~G~GKT~ll~~~~~   46 (185)
T PF13191_consen   25 RNLLLTGESGSGKTSLLRALLD   46 (185)
T ss_dssp             --EEE-B-TTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999998765

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=95.65  E-value=0.01  Score=43.50  Aligned_cols=21  Identities=29%  Similarity=0.509  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHh
Q 041042           84 LKISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~  104 (268)
                      -.++++|++|+|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            358999999999999999875

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=95.63  E-value=0.0096  Score=50.54  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      =++++|+.|||||||++.+.+
T Consensus        30 i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          30 ITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            367999999999999999876

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

Probab=95.61  E-value=0.08  Score=41.89  Aligned_cols=93  Identities=10%  Similarity=0.029  Sum_probs=56.5

Q ss_pred             eEEEEEEEeCCCccccccchhhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceE-EEEeCCCCCCCCCcc
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVAC--KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFIQLPID  206 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~--~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~i-lvgnK~Dl~~~~~~~  206 (268)
                      ..+.+.+.|+++.-.  ......+  ..+|.+|+|...+ ..+...+..+++.+.+..  .+.+ +|.|+.+-...-...
T Consensus        66 ~~yD~VIiD~pp~~~--~~~~~~~~~~~ad~viiV~~p~-~~s~~~~~~~~~~l~~~~--~~~~gvv~N~~~~~~~~~~~  140 (169)
T cd02037          66 GELDYLVIDMPPGTG--DEHLTLAQSLPIDGAVIVTTPQ-EVALDDVRKAIDMFKKVN--IPILGVVENMSYFVCPHCGK  140 (169)
T ss_pred             CCCCEEEEeCCCCCc--HHHHHHHhccCCCeEEEEECCc-hhhHHHHHHHHHHHHhcC--CCeEEEEEcCCcccCCCCCC
Confidence            356688999998532  2122222  5789999998765 567778888888877653  2344 889998832000001


Q ss_pred             chhc-hHHHHHHHHHHhCCeEE
Q 041042          207 LQWT-IASQARAYAKALNATLF  227 (268)
Q Consensus       207 ~~~~-~~~~~~~~~~~~~~~~~  227 (268)
                      .... .....+++++.++.+++
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~  162 (169)
T cd02037         141 KIYIFGKGGGEKLAEELGVPLL  162 (169)
T ss_pred             cccccCCccHHHHHHHcCCCEE
Confidence            1111 13466778888776654

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.

>PRK14530 adenylate kinase; Provisional

Probab=95.60  E-value=0.011  Score=49.00  Aligned_cols=22  Identities=27%  Similarity=0.261  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+|+|+|.+|+||||+.+.+..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999998854

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

Probab=95.57  E-value=0.01  Score=44.61  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=18.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|.|.+|+|||++++++...
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~   27 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQ   27 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999999775

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

Probab=95.56  E-value=0.012  Score=47.33  Aligned_cols=21  Identities=14%  Similarity=0.309  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHh
Q 041042           84 LKISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~  104 (268)
                      -.++|+|+.|+|||||++.+.
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            478999999999999999875

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

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.55  E-value=0.011  Score=49.19  Aligned_cols=21  Identities=24%  Similarity=0.570  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -|+++|++|+|||||++.+.+
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            488999999999999998866

>COG1161 Predicted GTPases [General function prediction only]

Probab=95.54  E-value=0.028  Score=49.60  Aligned_cols=92  Identities=17%  Similarity=0.148  Sum_probs=61.9

Q ss_pred             CCc-cccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHH
Q 041042          140 TGD-AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAY  218 (268)
Q Consensus       140 ~G~-~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~  218 (268)
                      +|+ ..+.......+...|+|+-|.|+-++.+-..     ..+.+.....+.++|+||+||   .+   ..+..+-.+.+
T Consensus        18 ~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~-----~~l~~~v~~k~~i~vlNK~DL---~~---~~~~~~W~~~~   86 (322)
T COG1161          18 PGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRN-----PELERIVKEKPKLLVLNKADL---AP---KEVTKKWKKYF   86 (322)
T ss_pred             CCchHHHHHHHHHhcccCCEEEEEEeccccccccC-----ccHHHHHccCCcEEEEehhhc---CC---HHHHHHHHHHH
Confidence            443 4455667778889999999999998875432     223333334555999999998   22   33344555555


Q ss_pred             HHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          219 AKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       219 ~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      .++.+...+.++++.+.+...+..
T Consensus        87 ~~~~~~~~~~v~~~~~~~~~~i~~  110 (322)
T COG1161          87 KKEEGIKPIFVSAKSRQGGKKIRK  110 (322)
T ss_pred             HhcCCCccEEEEeecccCccchHH
Confidence            556577778888888877666653

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=95.50  E-value=0.013  Score=48.54  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            6889999999999999999775

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PF05729 NACHT: NACHT domain

Probab=95.50  E-value=0.011  Score=46.03  Aligned_cols=21  Identities=24%  Similarity=0.407  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ++|.|.+|+|||+++.++...
T Consensus         3 l~I~G~~G~GKStll~~~~~~   23 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQ   23 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            689999999999999998764

>PRK13949 shikimate kinase; Provisional

Probab=95.49  E-value=0.012  Score=46.89  Aligned_cols=21  Identities=29%  Similarity=0.346  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +|+|+|.+|+||||+.+.+..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999998764

>PRK08233 hypothetical protein; Provisional

Probab=95.48  E-value=0.014  Score=46.57  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-|+|.|.+|+|||||.+++...
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            56788999999999999998753

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=95.48  E-value=0.013  Score=47.06  Aligned_cols=22  Identities=27%  Similarity=0.508  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      =+++|+|++|+|||||+|-+.+
T Consensus        26 e~vAi~GpSGaGKSTLLnLIAG   47 (231)
T COG3840          26 EIVAILGPSGAGKSTLLNLIAG   47 (231)
T ss_pred             cEEEEECCCCccHHHHHHHHHh
Confidence            3789999999999999998866

>PRK14532 adenylate kinase; Provisional

Probab=95.46  E-value=0.012  Score=47.41  Aligned_cols=22  Identities=23%  Similarity=0.374  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +|+++|.||+||||+..++...
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~   23 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEE   23 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999998653

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.46  E-value=0.012  Score=47.22  Aligned_cols=21  Identities=33%  Similarity=0.301  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+++|.+|+||||+++++..
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999999873

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=95.43  E-value=0.11  Score=45.05  Aligned_cols=74  Identities=14%  Similarity=0.110  Sum_probs=43.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcC--CcEEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKD--SIAILFM  162 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~--a~~vilv  162 (268)
                      .|+|.|.+|+||||+++.+...          |.      ..+++          ...+.+..+.......  .+.+.++
T Consensus         8 ~i~i~G~~GsGKtt~~~~l~~~----------g~------~~~d~----------~~~~L~~~l~~~~~~~~~~~~~av~   61 (288)
T PRK05416          8 LVIVTGLSGAGKSVALRALEDL----------GY------YCVDN----------LPPSLLPKLVELLAQSGGIRKVAVV   61 (288)
T ss_pred             EEEEECCCCCcHHHHHHHHHHc----------CC------eEECC----------cCHHHHHHHHHHHHhcCCCCCeEEE
Confidence            6899999999999999998421          11      01122          1112222222222221  3567888


Q ss_pred             EeCCChhhHHHHHHHHHHHHHh
Q 041042          163 FDLTSRCTLKSVIRWYQQARKC  184 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~  184 (268)
                      .|+.+...+.....++..+...
T Consensus        62 iD~r~~~~~~~~~~~~~~L~~~   83 (288)
T PRK05416         62 IDVRSRPFFDDLPEALDELRER   83 (288)
T ss_pred             EccCchhhHHHHHHHHHHHHHc
Confidence            8988766555666777777664

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.43  E-value=0.016  Score=47.65  Aligned_cols=24  Identities=21%  Similarity=0.378  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..-|+|+|.+|||||||++.+...
T Consensus        13 ~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         13 PLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhc
Confidence            466889999999999999999754

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=95.41  E-value=0.014  Score=48.21  Aligned_cols=22  Identities=32%  Similarity=0.552  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|.+|+|||||++.+.+-
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6889999999999999998874

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=95.41  E-value=0.13  Score=48.43  Aligned_cols=33  Identities=18%  Similarity=-0.012  Sum_probs=23.3

Q ss_pred             HHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          216 RAYAKALNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       216 ~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .++....++..+...+.+..-+...+..|+..-
T Consensus       197 ~~il~~~~i~~I~FNpIa~T~mkKaL~rI~~~E  229 (519)
T PF03215_consen  197 KEILNHPGITRIKFNPIAPTFMKKALKRILKKE  229 (519)
T ss_pred             HHHHhCCCceEEEecCCCHHHHHHHHHHHHHHH
Confidence            345566678888888777777777777776643

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.38  E-value=0.014  Score=46.61  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-+.|+|.+|+|||||+.++...
T Consensus         7 ~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          7 PLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             eEEEEECCCCChHHHHHHHHHHH
Confidence            35789999999999999998764

>TIGR00235 udk uridine kinase

Probab=95.38  E-value=0.016  Score=47.64  Aligned_cols=23  Identities=26%  Similarity=0.310  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..-|+|+|.+|+|||||++.+.+
T Consensus         6 g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         6 GIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999999875

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK02496 adk adenylate kinase; Provisional

Probab=95.38  E-value=0.016  Score=46.65  Aligned_cols=22  Identities=18%  Similarity=0.170  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|++|+|.+|+||||+.+.+..
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~   23 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAE   23 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998864

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.37  E-value=0.015  Score=47.67  Aligned_cols=22  Identities=32%  Similarity=0.383  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6899999999999999998774

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.36  E-value=0.015  Score=47.78  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|..|+|||||++.+.+-
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          29 FVLIVGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6889999999999999999775

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

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

Probab=95.34  E-value=0.015  Score=48.95  Aligned_cols=24  Identities=17%  Similarity=0.432  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++++|+|.+|+|||+|+..++..
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~   36 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYY   36 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHh
Confidence            489999999999999999888754

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

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=95.33  E-value=0.014  Score=47.12  Aligned_cols=22  Identities=32%  Similarity=0.448  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|..|+|||||++.+.+-
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999988764

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=95.32  E-value=0.016  Score=47.44  Aligned_cols=22  Identities=18%  Similarity=0.244  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+.|+|..|+|||||++.+.+-
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~   47 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLL   47 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6889999999999999999775

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=95.32  E-value=0.014  Score=47.99  Aligned_cols=22  Identities=27%  Similarity=0.306  Sum_probs=20.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++++|.+|+|||||++.+.+-
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC
Confidence            7899999999999999999774

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=95.31  E-value=0.016  Score=47.60  Aligned_cols=22  Identities=32%  Similarity=0.403  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|..|+|||||++.+.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          28 IFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999999875

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=95.30  E-value=0.016  Score=48.00  Aligned_cols=22  Identities=27%  Similarity=0.279  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|..|+|||||++.+.+-
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          28 IFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6889999999999999998875

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=95.30  E-value=0.015  Score=48.15  Aligned_cols=23  Identities=35%  Similarity=0.509  Sum_probs=20.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      -++++|..|+|||||++.+.+-.
T Consensus        31 iv~llG~NGaGKTTlLkti~Gl~   53 (237)
T COG0410          31 IVALLGRNGAGKTTLLKTIMGLV   53 (237)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998753

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	268
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		2e-12
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		4e-12
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		2e-11
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		2e-11
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		4e-11
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		4e-11
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		7e-11
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		1e-10
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		2e-10
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		2e-10
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		2e-10
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		3e-10
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		3e-10
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		4e-10
2efc_B	181	Ara7-GdpATVPS9A Length = 181		6e-10
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		1e-09
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		1e-09
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		1e-09
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		1e-09
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		3e-09
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		3e-09
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		4e-09
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		5e-09
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		6e-09
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		6e-09
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		9e-09
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		9e-09
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		1e-08
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		2e-08
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		2e-08
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		2e-08
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		2e-08
2bku_A	177	Kap95p:rangtp Complex Length = 177		2e-08
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		3e-08
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		3e-08
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		3e-08
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		3e-08
1byu_A	216	Canine Gdp-Ran Length = 216		3e-08
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		3e-08
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		3e-08
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		4e-08
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		6e-08
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		6e-08
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		7e-08
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		7e-08
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		7e-08
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		8e-08
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		8e-08
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		1e-07
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		1e-07
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		1e-07
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		1e-07
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-07
1vg1_A	185	Gdp-bound Rab7 Length = 185		2e-07
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		2e-07
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		2e-07
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-07
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		3e-07
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		3e-07
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		3e-07
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		3e-07
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		3e-07
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		3e-07
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		4e-07
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		4e-07
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		4e-07
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		5e-07
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		5e-07
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		6e-07
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		6e-07
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		6e-07
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		6e-07
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		7e-07
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		7e-07
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		8e-07
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		8e-07
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		9e-07
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		9e-07
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		9e-07
3icq_B	171	Karyopherin Nuclear State Length = 171		1e-06
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		1e-06
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		1e-06
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		2e-06
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		2e-06
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		2e-06
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		2e-06
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		3e-06
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		4e-06
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		4e-06
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		4e-06
4fmc_B	171	Espg-Rab1 Complex Length = 171		5e-06
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		5e-06
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		6e-06
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		6e-06
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		6e-06
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		6e-06
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		7e-06
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		7e-06
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		7e-06
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		1e-05
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		1e-05
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-05
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		2e-05
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		2e-05
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		2e-05
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		2e-05
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		2e-05
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-05
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		2e-05
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		2e-05
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		3e-05
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		3e-05
1mh1_A	186	Small G-Protein Length = 186		3e-05
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		3e-05
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		3e-05
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		3e-05
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		3e-05
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		3e-05
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		3e-05
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		4e-05
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		4e-05
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		4e-05
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		5e-05
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		5e-05
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		5e-05
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		5e-05
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		5e-05
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		6e-05
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		7e-05
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-04
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		1e-04
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		1e-04
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		2e-04
4fmc_F	117	Espg-Rab1 Complex Length = 117		2e-04
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		3e-04
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		3e-04
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		3e-04
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		3e-04
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		3e-04
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		3e-04
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		4e-04
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		4e-04
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		4e-04
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		5e-04
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		5e-04
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		5e-04
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		5e-04
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		6e-04

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 44/170 (25%), Positives = 87/170 (51%), Gaps = 6/170 (3%)
Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
           +L  LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW+ 
Sbjct: 2   SLRELKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDT 61
Query: 140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD 198
            G  + +   P+  + S A + ++D+T   T  ++  W ++ R+    +I + I G K D
Sbjct: 62  AGQERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCD 121
Query: 199 DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                  D++  +   A+ YA +++A    +SA   IN+N++   I+ ++
Sbjct: 122 -----LTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 166

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score = 68.6 bits (166), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 44/169 (26%), Positives = 86/169 (50%), Gaps = 6/169 (3%)
Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           L  LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW+  
Sbjct: 4   LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTA 63
Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDD 199
           G  + +   P+  + S A + ++D+T   T  ++  W ++ R+    +I + I G K D 
Sbjct: 64  GLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCD- 122
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                 D++  +   A+ YA +++A    +SA   IN+N++   I+ ++
Sbjct: 123 ----LTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 167

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 66.2 bits (160), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/168 (25%), Positives = 86/168 (51%), Gaps = 10/168 (5%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ LLGD  +GK+S + ++V D  +   SP  G + M KT+        + IW+  G  
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 83
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD--DF 200
           +     P+  + S A + ++D+T + +  ++ +W ++ ++     I + I G K D  D 
Sbjct: 84  RFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI 143
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            ++P+         A+ YA+++ A +  +SA   IN+ ++ + I+ ++
Sbjct: 144 REVPL-------KDAKEYAESIGAIVVETSAKNAINIEELFQGISRQI 184

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 44/166 (26%), Positives = 81/166 (48%), Gaps = 8/166 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +KI L+GD  +GK+  L ++V D+         G++   KT+ + G ++   IW+  G  
Sbjct: 4   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE 63
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + ++ I+ ++D+T   T  ++ +W++   +  N  A  +++G K D    
Sbjct: 64  RFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD---- 119
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             ++ +   A Q  A AK L      SSA  + NVN+I  F  AKL
Sbjct: 120 --METRVVTADQGEALAKELGIPFIESSAKNDDNVNEIF-FTLAKL 162

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 65.1 bits (157), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 43/166 (25%), Positives = 81/166 (48%), Gaps = 8/166 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +KI L+GD  +GK+  L ++V D+         G++   KT+ + G ++   +W+  G  
Sbjct: 8   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQE 67
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + ++ I+ ++D+T   T  ++ +W++   +  N  A  +++G K D    
Sbjct: 68  RFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD---- 123
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             ++ +   A Q  A AK L      SSA  + NVN+I  F  AKL
Sbjct: 124 --METRVVTADQGEALAKELGIPFIESSAKNDDNVNEIF-FTLAKL 166

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 65.1 bits (157), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 39/160 (24%), Positives = 80/160 (50%), Gaps = 6/160 (3%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
           + K+ LLG+  +GKTS + +Y  ++         G + + K L + G R++ +IW+  G 
Sbjct: 6   SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQ 65
Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFI 201
            +     P+  +DS   + ++D+T   + + V  W ++ RK     I + I+G K D   
Sbjct: 66  ERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEK 125
Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL 241
           +  + +Q     +A +YA+++ A  + +SA  N  + ++ 
Sbjct: 126 ERHVSIQ-----EAESYAESVGAKHYHTSAKQNKGIEELF 160

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 64.3 bits (155), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 46/180 (25%), Positives = 87/180 (48%), Gaps = 10/180 (5%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +KI L+GD  +GK+  L ++V D+         G++   KT+ + G ++   +W+  G  
Sbjct: 21  MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQE 80
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + ++ I+ ++D+T   T  ++ +W++   +  N  A  +++G K D    
Sbjct: 81  RFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD---- 136
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIG 262
             ++ +   A Q  A AK L      SSA  + NVN+I  F  AKL  I   ++ N  +G
Sbjct: 137 --METRVVTADQGEALAKELGIPFIESSAKNDDNVNEIF-FTLAKL--IQEKIDSNKLVG 191

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 63.5 bits (153), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 44/165 (26%), Positives = 78/165 (47%), Gaps = 8/165 (4%)
Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           KI L+GD  +GK+  L ++V D+         G++   KT+ + G ++   IW+  G  +
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQER 64
Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
            +       + +  I+ ++D+T   T  ++ +W++   +  N  A  +++G K D     
Sbjct: 65  FRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD----- 119
Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             + +   A Q  A AK L      SSA  + NVN+I  F  AKL
Sbjct: 120 -XETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIF-FTLAKL 162

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 62.8 bits (151), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/171 (23%), Positives = 80/171 (46%), Gaps = 10/171 (5%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK++ L ++  +E         G+    +++ V G  I   IW+  G  
Sbjct: 6   FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE 65
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD--DF 200
           + +       + ++  L ++D+    T ++V RW ++ R    + I I ++G K D    
Sbjct: 66  RYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 125
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             +P D       +ARA+A+  N +   +SA  + NV +  K I  +++ I
Sbjct: 126 RAVPTD-------EARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRI 169

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 62.8 bits (151), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/169 (24%), Positives = 78/169 (46%), Gaps = 6/169 (3%)
Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           L   K+  LG+  +GKTS + +++ D  +       G++ + KT+ +    I   +W+  
Sbjct: 4   LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTA 63
Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR-KCNQTAIPIIIGTKFDD 199
           G  + +  +P   +DS A + ++D+T+  + +   +W    R +     I +++G K D 
Sbjct: 64  GQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTD- 122
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
              L    Q +I    R  AK LN     +SA    NV ++ + + A L
Sbjct: 123 ---LADKRQVSIEEGERK-AKELNVMFIETSAKAGYNVKQLFRRVAAAL 167

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 43/179 (24%), Positives = 83/179 (46%), Gaps = 6/179 (3%)
Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           L   K+  LG+  +GKTS + +++ D  +       G++ + KT+ +    I   +W+  
Sbjct: 11  LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTA 70
Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR-KCNQTAIPIIIGTKFDD 199
           G  + +  +P   +DS A + ++D+T+  + +   +W    R +     I +++G K D 
Sbjct: 71  GLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTD- 129
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERN 258
              L    Q +I    R  AK LN     +SA    NV ++ + + A L  +  T +R+
Sbjct: 130 ---LADKRQVSIEEGERK-AKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRS 184

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 62.0 bits (149), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/160 (23%), Positives = 79/160 (49%), Gaps = 6/160 (3%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
           + K+ LLG+  +GKTS + +Y  ++           + + K L + G R++ +IW+  G 
Sbjct: 20  SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQ 79
Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFI 201
            +     P+  +DS   + ++D+T   + + V  W ++ RK     I + I+G K D   
Sbjct: 80  ERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEK 139
Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL 241
           +  + +Q     +A +YA+++ A  + +SA  N  + ++ 
Sbjct: 140 ERHVSIQ-----EAESYAESVGAKHYHTSAKQNKGIEELF 174

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 62.0 bits (149), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 43/165 (26%), Positives = 78/165 (47%), Gaps = 8/165 (4%)
Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           KI L+GD  +GK+  L ++V D+         G++   KT+ + G ++   +W+  G  +
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQER 64
Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
            +       + +  I+ ++D+T   T  ++ +W++   +  N  A  +++G K D     
Sbjct: 65  FRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD----- 119
Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             + +   A Q  A AK L      SSA  + NVN+I  F  AKL
Sbjct: 120 -XETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIF-FTLAKL 162

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 61.6 bits (148), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 38/160 (23%), Positives = 79/160 (49%), Gaps = 6/160 (3%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
           + K+ LLG+  +GKTS + +Y  ++           + + K L + G R++ +IW+  G 
Sbjct: 6   SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQ 65
Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFI 201
            +     P+  +DS   + ++D+T   + + V  W ++ RK     I + I+G K D   
Sbjct: 66  ERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEK 125
Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL 241
           +  + +Q     +A +YA+++ A  + +SA  N  + ++ 
Sbjct: 126 ERHVSIQ-----EAESYAESVGAKHYHTSAKQNKGIEELF 160

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 61.2 bits (147), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 44/167 (26%), Positives = 79/167 (47%), Gaps = 10/167 (5%)
Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ LLGD   GK+S + ++V D+  +      G     +TL V  A + + IW+  G  +
Sbjct: 14  KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQER 73
Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR-KCNQTAIPIIIGTKFDDFIQL 203
                P+  + + A + +FD+T++ + +   +W Q+ + + N   +  + G K D     
Sbjct: 74  YHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSD----- 128
Query: 204 PIDLQWTIASQARAYAKALNATLFF--SSATYNINVNKILKFITAKL 248
            +D +   A  A+ YA+     LFF  +SA    NV +I   I  +L
Sbjct: 129 LLDARKVTAEDAQTYAQ--ENGLFFMETSAKTATNVKEIFYEIARRL 173

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 44/188 (23%), Positives = 86/188 (45%), Gaps = 9/188 (4%)
Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           L   K+  LG+  +GKTS + +++ D  +       G++ + KT+ +    +   +W+  
Sbjct: 4   LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 63
Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR-KCNQTAIPIIIGTKFDD 199
           G  + +  +P   +DS   + ++D+T+  + +   +W    R +     I +++G K D 
Sbjct: 64  GLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTD- 122
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
              L    Q +I    R  AK LN     +SA    NV ++ + + A L  +  T +R+ 
Sbjct: 123 ---LADKRQVSIEEGERK-AKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSR 178
Query: 260 TIGEPIID 267
              E +ID
Sbjct: 179 ---EDMID 183

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 41/179 (22%), Positives = 82/179 (45%), Gaps = 6/179 (3%)
Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           L   K+  LG+  +GKTS + +++ D  +       G++ + KT+ +    +   +W+  
Sbjct: 14  LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 73
Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR-KCNQTAIPIIIGTKFDD 199
           G  + +  +P   +DS   + ++D+T+  + +   +W    R +     I +++G K D 
Sbjct: 74  GLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTD- 132
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERN 258
              L    Q +I    R  AK LN     +SA    NV ++ + + A L  +  T +R+
Sbjct: 133 ---LADKRQVSIEEGERK-AKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRS 187

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/166 (22%), Positives = 76/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+  LG+  +GKTS + +++ D  +       G++ + KT+ +    +   +W+  G  
Sbjct: 2   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 61
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR-KCNQTAIPIIIGTKFDDFIQ 202
           + +  +P   +DS   + ++D+T+  + +   +W    R +     I +++G K D    
Sbjct: 62  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTD---- 117
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
           L    Q +I    R  AK LN     +SA    NV ++ + + A L
Sbjct: 118 LADKRQVSIEEGERK-AKELNVMFIETSAKAGYNVKQLFRRVAAAL 162

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 71/160 (44%), Gaps = 6/160 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+G+  +GKTSFL +Y  D          G++   KT+     RI   IW+  G  
Sbjct: 23  FKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQE 82
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFDDFIQ 202
           + +       + ++  L M+D+ ++ +  +V  W  Q +  +   A  I++G K D    
Sbjct: 83  RYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCD---- 138
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK 242
              D +   A   R  A  L    F +SA  NINV ++ +
Sbjct: 139 -LEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFE 177

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/186 (24%), Positives = 84/186 (45%), Gaps = 19/186 (10%)
Query: 58  GLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEG 117
           GLVP  + RP          AD    L++ ++G   +GKTS +E++  D   +      G
Sbjct: 13  GLVPRGSPRP----------AD--FKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVG 60
Query: 118 LNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRW 177
           ++   KT+ +RG +I   IW+  G  +         + +  I+ ++D+T + T   + +W
Sbjct: 61  VDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKW 120
Query: 178 YQQARK-CNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLF-FSSATYNI 235
            +   K  ++ A  +++G K D      I  Q     Q   +A+ +    F  +SA  N 
Sbjct: 121 MKMIDKYASEDAELLLVGNKLDCETDREITRQ-----QGEKFAQQITGMRFCEASAKDNF 175
Query: 236 NVNKIL 241
           NV++I 
Sbjct: 176 NVDEIF 181

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 39/171 (22%), Positives = 78/171 (45%), Gaps = 10/171 (5%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK++ L ++  +E         G+    +++ V G  I   IW+  G  
Sbjct: 21  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE 80
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD--DF 200
           + +       + ++  L ++D+    T ++V RW ++ R    + I I ++G K D    
Sbjct: 81  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 140
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             +P D       +ARA+A+    +   +SA  + NV    + I  +++ I
Sbjct: 141 RAVPTD-------EARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRI 184

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 58.2 bits (139), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 36/169 (21%), Positives = 74/169 (43%), Gaps = 6/169 (3%)
Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           L   K+  LG+  +GKTS + +++ D  +       G++ + KT+ +    +   +W+  
Sbjct: 12  LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA 71
Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR-KCNQTAIPIIIGTKFDD 199
           G  + +  +P   +DS   + ++D+T+  +     +W    R +     I +++G K D 
Sbjct: 72  GQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTD- 130
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                 D +     +    AK LN     +SA    NV ++ + + A L
Sbjct: 131 ----LSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 58.2 bits (139), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 40/160 (25%), Positives = 71/160 (44%), Gaps = 6/160 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI ++G+  +GKTSFL +Y  D          G++   KT+     RI   IW+  G  
Sbjct: 6   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQE 65
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFDDFIQ 202
           + +       + ++  + M+D+T+  +  +V  W  Q +  +   A  +++G K D    
Sbjct: 66  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCD---- 121
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK 242
              D +   + + R  A  L    F +SA  NINV +  +
Sbjct: 122 -MEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFE 160

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 38/178 (21%), Positives = 81/178 (45%), Gaps = 12/178 (6%)
Query: 68  SLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV 127
           S+   + HL        K+ ++GD  +GK+S L ++  +          G++   +T+ +
Sbjct: 1   SMARDYDHL-------FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI 53
Query: 128 RGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQT 187
            G ++   IW+  G  + +       + +  ++ ++D+TS  +  +V RW  +  +    
Sbjct: 54  NGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDD 113
Query: 188 AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFIT 245
              I++G K DD  +  ++ +      A  +A  +   LF +SA  N+NV ++   IT
Sbjct: 114 VCRILVGNKNDDPERKVVETE-----DAYKFAGQMGIQLFETSAKENVNVEEMFNCIT 166

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 38/169 (22%), Positives = 77/169 (45%), Gaps = 10/169 (5%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK++ L ++  +E         G+    +++ V G  I   IW+  G  
Sbjct: 30  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE 89
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD--DF 200
           + +       + ++  L ++D+    T ++V RW ++ R    + I I ++G K D    
Sbjct: 90  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 149
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
             +P D       +ARA+A+    +   +SA  + NV    + I  +++
Sbjct: 150 RAVPTD-------EARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 57.4 bits (137), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 36/168 (21%), Positives = 77/168 (45%), Gaps = 6/168 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+  LG+  +GKTS + +++ D  +       G++ + KT+ +    +   +W+  G  
Sbjct: 3   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 62
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR-KCNQTAIPIIIGTKFDDFIQ 202
           + +  +P   +DS   + ++D+T+  + +   +W    R +     I +++G K D    
Sbjct: 63  RFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTD---- 118
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
           L    Q TI  +    AK L+     +SA    NV ++ + + + L +
Sbjct: 119 LADKRQITI-EEGEQRAKELSVMFIETSAKTGYNVKQLFRRVASALLE 165

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 57.4 bits (137), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 37/165 (22%), Positives = 75/165 (45%), Gaps = 6/165 (3%)
Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+  LG+  +GKTS + ++  D  +       G++ + KTL +    +   +W+  G  +
Sbjct: 3   KLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQER 62
Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQA-RKCNQTAIPIIIGTKFDDFIQL 203
            +  +P   +DS A + ++D+T+R + ++  +W Q    +  +  I  ++G K D     
Sbjct: 63  FRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTD----- 117
Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             DL+     +    A+  N     +SA    N+  + K   +KL
Sbjct: 118 LGDLRKVTYEEGXQKAQEYNTXFHETSAKAGHNIKVLFKKTASKL 162

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 39/171 (22%), Positives = 78/171 (45%), Gaps = 10/171 (5%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK++ L ++  +E         G+    +++ V G  I   IW+  G  
Sbjct: 9   FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE 68
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD--DF 200
           + +       + ++  L ++D+    T ++V RW ++ R    + I I ++G K D    
Sbjct: 69  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 128
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             +P D       +ARA+A+    +   +SA  + NV    + I  +++ I
Sbjct: 129 RAVPTD-------EARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRI 172

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 56.6 bits (135), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 81/167 (48%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  +      W ++  R+ +   +  + G K D   +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             +D Q     +A++YA   N+ LF  +SA  ++NVN+I   I  KL
Sbjct: 127 RAVDFQ-----EAQSYADD-NSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 81/167 (48%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  +      W ++  R+ +   +  + G K D   +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             +D Q     +A++YA   N+ LF  +SA  ++NVN+I   I  KL
Sbjct: 127 RAVDFQ-----EAQSYADD-NSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 38/169 (22%), Positives = 77/169 (45%), Gaps = 10/169 (5%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK++ L ++  +E         G+    +++ V G  I   IW+  G  
Sbjct: 30  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE 89
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD--DF 200
           + +       + ++  L ++D+    T ++V RW ++ R    + I I ++G K D    
Sbjct: 90  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 149
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
             +P D       +ARA+A+    +   +SA  + NV    + I  +++
Sbjct: 150 RAVPTD-------EARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 81/167 (48%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  +      W ++  R+ +   +  + G K D   +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             +D Q     +A++YA   N+ LF  +SA  ++NVN+I   I  KL
Sbjct: 127 RAVDFQ-----EAQSYADD-NSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 48/189 (25%), Positives = 84/189 (44%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+   P  G+ +           I +++W+  G
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   + MFD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 69  QEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 125
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 126 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 168
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 169 -IGDPNLEF 176

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 38/169 (22%), Positives = 77/169 (45%), Gaps = 10/169 (5%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK++ L ++  +E         G+    +++ V G  I   IW+  G  
Sbjct: 6   FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE 65
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD--DF 200
           + +       + ++  L ++D+    T ++V RW ++ R    + I I ++G K D    
Sbjct: 66  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHL 125
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
             +P D       +ARA+A+    +   +SA  + NV    + I  +++
Sbjct: 126 RAVPTD-------EARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 167

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 38/169 (22%), Positives = 77/169 (45%), Gaps = 10/169 (5%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK++ L ++  +E         G+    +++ V G  I   IW+  G  
Sbjct: 12  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE 71
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD--DF 200
           + +       + ++  L ++D+    T ++V RW ++ R    + I I ++G K D    
Sbjct: 72  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHL 131
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
             +P D       +ARA+A+    +   +SA  + NV    + I  +++
Sbjct: 132 RAVPTD-------EARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 173

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/167 (23%), Positives = 80/167 (47%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 63
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  T      W ++  R+ +   +  + G K D   +
Sbjct: 64  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 123
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             ++ Q     +A+AYA   N+ LF  +SA   +NVN+I   I  KL
Sbjct: 124 RAVEFQ-----EAQAYADD-NSLLFMETSAKTAMNVNEIFMAIAKKL 164

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 55.5 bits (132), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 81/167 (48%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  +      W ++  R+ +   +  + G K D   +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             +D Q     +A++YA   N+ LF  +SA  ++NVN+I   I  KL
Sbjct: 127 RAVDFQ-----EAQSYADD-NSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 55.5 bits (132), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 48/189 (25%), Positives = 84/189 (44%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+   P  G+ +           I +++W+  G
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   + MFD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 69  QEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 125
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 126 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 168
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 169 -IGDPNLEF 176

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 55.5 bits (132), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 81/167 (48%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  +      W ++  R+ +   +  + G K D   +
Sbjct: 68  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 127
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             +D Q     +A++YA   N+ LF  +SA  ++NVN+I   I  KL
Sbjct: 128 RAVDFQ-----EAQSYADD-NSLLFMETSAKTSMNVNEIFMAIAKKL 168

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 55.5 bits (132), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 81/167 (48%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  +      W ++  R+ +   +  + G K D   +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             +D Q     +A++YA   N+ LF  +SA  ++NVN+I   I  KL
Sbjct: 127 RAVDFQ-----EAQSYADD-NSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 55.1 bits (131), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 81/167 (48%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  +      W ++  R+ +   +  + G K D   +
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             +D Q     +A++YA   N+ LF  +SA  ++NVN+I   I  KL
Sbjct: 127 RAVDFQ-----EAQSYADD-NSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 54.7 bits (130), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 47/175 (26%), Positives = 78/175 (44%), Gaps = 17/175 (9%)
Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLL--VRGA---- 130
           D D    +K+  LGD  +GKT+FL +Y  ++         G++  +K ++   +GA    
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 131 ----RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ 186
               ++   +W+  G  + +       +D++  L MFDLTS+ +  +V  W  Q +    
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAY 124
Query: 187 TAIP--IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK 239
              P  ++IG K D    LP D +     QAR  A+      F +SA    NV K
Sbjct: 125 CENPDIVLIGNKAD----LP-DQREVNERQARELAEKYGIPYFETSAATGQNVEK 174

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 54.3 bits (129), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 40/167 (23%), Positives = 80/167 (47%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  T      W ++  R+ +   +  + G K D   +
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 125
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             ++ Q     +A+AYA   N+ LF  +SA   +NVN+I   I  KL
Sbjct: 126 RAVEFQ-----EAQAYADD-NSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 54.3 bits (129), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 46/182 (25%), Positives = 85/182 (46%), Gaps = 17/182 (9%)
Query: 75  HLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISY 134
           H++  N V  K+ L+G+  +GKT+ L ++  +E         G+    +T+++  A +  
Sbjct: 3   HMEDYNFV-FKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKA 61
Query: 135 SIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII 193
            IW+  G  + +       + ++  L +FDLT   T   V RW ++       T + +++
Sbjct: 62  QIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLV 121
Query: 194 GTKFD--DFIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINV----NKILKFITA 246
           G K D     ++P +       +AR +A+  N  LF  +SA  + NV      +LK I A
Sbjct: 122 GNKSDLSQAREVPTE-------EARMFAEN-NGLLFLETSALDSTNVELAFETVLKEIFA 173
Query: 247 KL 248
           K+
Sbjct: 174 KV 175

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 54.3 bits (129), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 81/167 (48%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  +      W ++  R+ +   +  + G K D   +
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 125
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             +D Q     +A++YA   N+ LF  +SA  ++NVN+I   I  KL
Sbjct: 126 RAVDFQ-----EAQSYADD-NSLLFMETSAKTSMNVNEIFMAIAKKL 166

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 54.3 bits (129), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 38/143 (26%), Positives = 65/143 (45%), Gaps = 12/143 (8%)
Query: 58  GLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKY-VGDEKEQGGSPGE 116
           GLVP  +  P         D       K+ L+GD  +GKT  ++++  G   E+ GS   
Sbjct: 13  GLVPRGSGDP---------DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGST-I 62
Query: 117 GLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIR 176
           G++   KTL ++G R+   IW+  G  + +       + +   +  +D+T R +  SV  
Sbjct: 63  GVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPH 122
Query: 177 WYQQARK-CNQTAIPIIIGTKFD 198
           W +  RK      + ++IG K D
Sbjct: 123 WIEDVRKYAGSNIVQLLIGNKSD 145

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 54.3 bits (129), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 31/117 (26%), Positives = 55/117 (47%), Gaps = 1/117 (0%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
           A KI L GD  +GK+SFL +   +E  +  S   G++   KTL+V G R    +W+  G 
Sbjct: 28  AYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQ 87
Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD 198
            + +       + +  +L ++D+T   +  ++  W           +PI ++G K D
Sbjct: 88  ERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKAD 144

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 53.9 bits (128), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 49/189 (25%), Positives = 81/189 (42%), Gaps = 10/189 (5%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V LK+ +LGD  +GKTS + +YV  +         G + + K ++V    ++  IW+  G
Sbjct: 7   VLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAG 66
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQ----QARKCNQTAIP-IIIGTK 196
             + Q       + +   + +FD+T+  T K++  W      QA   +    P +++G K
Sbjct: 67  QERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNK 126
Query: 197 FDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLE 256
            D    L      T  +QA  Y+K  N   F +SA   INV +  + I          +E
Sbjct: 127 ID----LENRQVATKRAQAWCYSKN-NIPYFETSAKEAINVEQAFQTIARNALKQETEVE 181
Query: 257 RNLTIGEPI 265
                 EPI
Sbjct: 182 LYNEFPEPI 190

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 79/167 (47%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+  G  
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P   + + A + ++D+T+  +      W ++  R+ +   +  + G K D   +
Sbjct: 68  RYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 127
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             +D Q     +A++YA   N+ LF  +SA  + NVN+I   I  KL
Sbjct: 128 RAVDFQ-----EAQSYADD-NSLLFXETSAKTSXNVNEIFXAIAKKL 168

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 47/178 (26%), Positives = 80/178 (44%), Gaps = 17/178 (9%)
Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLL--VRGA---- 130
           D D    +K+  LGD  +GKT+FL +Y  ++         G++  +K ++   +GA    
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 131 ----RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ 186
               ++   +W+  G  + +       +D++  L MFDLTS+ +  +V  W  Q +    
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAY 124
Query: 187 TAIP--IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK 242
              P  ++IG K D    LP D +     QAR  A+      F +SA    NV K ++
Sbjct: 125 CENPDIVLIGNKAD----LP-DQREVNERQARELAEKYGIPYFETSAATGQNVEKSVE 177

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 46/178 (25%), Positives = 78/178 (43%), Gaps = 19/178 (10%)
Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV--------- 127
           D D L+  K+  LGD  +GKT+FL +Y  ++         G++  +K ++          
Sbjct: 21  DYDYLI--KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSS 78
Query: 128 -RGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ 186
            +  ++   +W+  G  + +       +D++  L MFDLTS+ +  +V  W  Q +    
Sbjct: 79  GKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAY 138
Query: 187 TAIP--IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK 242
              P  ++IG K D    LP D +     QAR  A       F +SA    NV K ++
Sbjct: 139 CENPDIVLIGNKAD----LP-DQREVNERQARELADKYGIPYFETSAATGQNVEKAVE 191

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 49/189 (25%), Positives = 82/189 (43%), Gaps = 10/189 (5%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V LK+ +LGD  +GKTS + +YV  +         G + + K ++V    ++  IW+  G
Sbjct: 7   VLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAG 66
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQ----QARKCNQTAIP-IIIGTK 196
             + Q       + +   + +FD+T+  T K++  W      QA   +    P +++G K
Sbjct: 67  QERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNK 126
Query: 197 FDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLE 256
             DF    +    T  +QA  Y+K  N   F +SA   INV +  + I          +E
Sbjct: 127 I-DFENRQVA---TKRAQAWCYSKN-NIPYFETSAKEAINVEQAFQTIARNALKQETEVE 181
Query: 257 RNLTIGEPI 265
                 EPI
Sbjct: 182 LYNEFPEPI 190

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 49/194 (25%), Positives = 85/194 (43%), Gaps = 33/194 (17%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 14  VQFKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 73
Query: 142 DAKAQDHLPVACKDSIAI-----LFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-G 194
             K         +D   I     + MFD+TSR T K+V  W++   R C    IPI++ G
Sbjct: 74  QEKFG-----GLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCG 126
Query: 195 TKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWT 254
            K D  I+        + +++  + +  N   +  SA  N N  K   ++  KL      
Sbjct: 127 NKVD--IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL------ 173
Query: 255 LERNLTIGEPIIDF 268
                 IG+P ++F
Sbjct: 174 ------IGDPNLEF 181

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 45/168 (26%), Positives = 76/168 (45%), Gaps = 10/168 (5%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V LK+ +LGD  +GKTS + +YV  +         G + + K ++V    ++  IW+  G
Sbjct: 7   VLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAG 66
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQ----QARKCNQTAIP-IIIGTK 196
             + Q       + +   + +FD+T+  T K++  W      QA   +    P +++G K
Sbjct: 67  QERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNK 126
Query: 197 FDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI 244
            D    L      T  +QA  Y+K  N   F +SA   INV +  + I
Sbjct: 127 ID----LENRQVATKRAQAWCYSKN-NIPYFETSAKEAINVEQAFQTI 169

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/160 (24%), Positives = 69/160 (43%), Gaps = 6/160 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI ++G+  +GKTSFL +Y  D          G++   KT+     RI   IW+  G  
Sbjct: 9   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLE 68
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFDDFIQ 202
           + +       + +   +  +D+T+  +  +V  W  Q +  +   A  +++G K D    
Sbjct: 69  RYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCD---- 124
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK 242
              D +   + + R  A  L    F +SA  NINV +  +
Sbjct: 125 -XEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFE 163

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 49/189 (25%), Positives = 81/189 (42%), Gaps = 10/189 (5%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V LK+ +LGD  +GKTS + +YV  +         G + + K ++V    ++  IW+  G
Sbjct: 7   VLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAG 66
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQ----QARKCNQTAIP-IIIGTK 196
             + Q       + +   + +FD+T+  T K++  W      QA   +    P +++G K
Sbjct: 67  LERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNK 126
Query: 197 FDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLE 256
            D    L      T  +QA  Y+K  N   F +SA   INV +  + I          +E
Sbjct: 127 ID----LENRQVATKRAQAWCYSKN-NIPYFETSAKEAINVEQAFQTIARNALKQETEVE 181
Query: 257 RNLTIGEPI 265
                 EPI
Sbjct: 182 LYNEFPEPI 190

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/167 (23%), Positives = 79/167 (47%), Gaps = 8/167 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GK+S + ++V  +  +          + +T+ +    + + IW+  G  
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQE 65
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           +     P+  + + A + ++D+T+  T      W ++  R+ +   +  + G K D   +
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 125
Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             ++ Q     +A+AYA   N+ LF  +SA   +NVN+I   I  KL
Sbjct: 126 RAVEFQ-----EAQAYADD-NSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 47/189 (24%), Positives = 83/189 (43%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   + MFD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 69  QEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 125
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 126 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 168
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 169 -IGDPNLEF 176

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 47/189 (24%), Positives = 83/189 (43%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   + MFD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 69  QEKYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 125
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 126 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 168
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 169 -IGDPNLEF 176

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 47/189 (24%), Positives = 83/189 (43%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 2   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 61
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   + MFD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 62  QEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 118
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 119 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 161
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 162 -IGDPNLEF 169

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 42/162 (25%), Positives = 76/162 (46%), Gaps = 5/162 (3%)
Query: 75  HLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISY 134
           H+D +  V  KI ++GD   GKT+ L  +  D   +   P    N    +  +   RI  
Sbjct: 20  HMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIEL 78
Query: 135 SIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARK-CNQTAIPII 192
           S+W+ +G     +  P++  DS A+L  FD++   TL SV+ +W  + ++ C  T + ++
Sbjct: 79  SLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKM-LL 137
Query: 193 IGTKFDDFIQLPIDLQWTIASQAR-AYAKALNATLFFSSATY 233
           +G K D    +   ++ +   Q   +Y +  N      +ATY
Sbjct: 138 VGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY 179

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 49/192 (25%), Positives = 87/192 (45%), Gaps = 29/192 (15%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 142 DAK---AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTK 196
             K    +D   +  + +I    MFD+TSR T K+V  W++   R C    IPI++ G K
Sbjct: 69  QEKFGGLEDGYYIQAQCAI---IMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNK 123
Query: 197 FDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLE 256
            D  I+        + +++  + +  N   +  SA  N N  K   ++  KL        
Sbjct: 124 VD--IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL-------- 168
Query: 257 RNLTIGEPIIDF 268
               IG+P ++F
Sbjct: 169 ----IGDPNLEF 176

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 47/189 (24%), Positives = 83/189 (43%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   + MFD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 69  QEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 125
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 126 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 168
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 169 -IGDPNLEF 176

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 52.0 bits (123), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 47/189 (24%), Positives = 83/189 (43%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   + MFD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 69  QEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 125
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 126 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 168
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 169 -IGDPNLEF 176

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 52.0 bits (123), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 43/173 (24%), Positives = 80/173 (46%), Gaps = 16/173 (9%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+G+  +GKT+ L ++  +E         G+    +T+++  A +   IW+  G  
Sbjct: 26  FKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLE 85
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFD--DF 200
           + +       + ++  L +FDLT   T   V RW ++       T + +++G K D    
Sbjct: 86  RYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQA 145
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINV----NKILKFITAKL 248
            ++P +       +AR +A+  N  LF  +SA  + NV      +LK I AK+
Sbjct: 146 REVPTE-------EARMFAEN-NGLLFLETSALDSTNVELAFETVLKEIFAKV 190

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 49/194 (25%), Positives = 85/194 (43%), Gaps = 33/194 (17%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 14  VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 73
Query: 142 DAKAQDHLPVACKDSIAI-----LFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-G 194
             K         +D   I     + MFD+TSR T K+V  W++   R C    IPI++ G
Sbjct: 74  QEKFG-----GLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCG 126
Query: 195 TKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWT 254
            K D  I+        + +++  + +  N   +  SA  N N  K   ++  KL      
Sbjct: 127 NKVD--IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL------ 173
Query: 255 LERNLTIGEPIIDF 268
                 IG+P ++F
Sbjct: 174 ------IGDPNLEF 181

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 51.2 bits (121), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 26/116 (22%), Positives = 54/116 (46%), Gaps = 1/116 (0%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI L+GD  +GK++ L ++  +E         G+    +TL + G RI   IW+  G  
Sbjct: 14  FKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQE 73
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD 198
           + +       + ++  L ++D++   + ++   W  + R+     + + +IG K D
Sbjct: 74  RYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSD 129

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 51.2 bits (121), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 43/170 (25%), Positives = 81/170 (47%), Gaps = 15/170 (8%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARI-SYSIWEVTGD 142
           LK+ +LGD  +GKTS + +YV D+  Q      G + + K + V G ++ +  +W+  G 
Sbjct: 9   LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQ 68
Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ----ARKCNQTAIP-IIIGTKF 197
            + Q       + +   + ++D+T+  + +++  W  +    A   +    P +I+G K 
Sbjct: 69  ERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKI 128
Query: 198 DDFIQLPIDLQWTIASQ--ARAYAKAL-NATLFFSSATYNINVNKILKFI 244
           D       +    I S+  A+  AK+L +  LF +SA   INV+   + I
Sbjct: 129 D------AEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEI 172

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 51.2 bits (121), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 42/169 (24%), Positives = 80/169 (47%), Gaps = 19/169 (11%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI ++GD ++GKT    ++             G++  ++ + + G RI   +W+  G  
Sbjct: 21  FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE 80
Query: 144 KAQDHLPVACKDSI-AILFMFDLTSRCTLKSVIRWYQQARKCNQ----TAIP-IIIGTKF 197
           + +  +      ++ A++F++D+T+  +  S+  W ++   C Q      IP I++G K 
Sbjct: 81  RFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEE---CKQHLLANDIPRILVGNKC 137
Query: 198 D--DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI 244
           D    IQ+P DL       A+ +A   +  LF +SA  N N N  ++ I
Sbjct: 138 DLRSAIQVPTDL-------AQKFADTHSMPLFETSAK-NPNDNDHVEAI 178

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 51.2 bits (121), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 31/124 (25%), Positives = 60/124 (48%), Gaps = 2/124 (1%)
Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSI 136
           D D L  LKI ++G+  +GK+S L ++  D  +   +   G++   KT+ V G +   +I
Sbjct: 9   DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAI 68
Query: 137 WEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAI-PIIIG 194
           W+  G  + +   P   + +  ++ ++D+T R T   +  W  +    C +  I   ++G
Sbjct: 69  WDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVG 128
Query: 195 TKFD 198
            K D
Sbjct: 129 NKID 132

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 51.2 bits (121), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 41/184 (22%), Positives = 88/184 (47%), Gaps = 11/184 (5%)
Query: 78  ADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIW 137
           A  +   K+ LLG+  +GK+S + ++V  +  +      G   + +++ +    + + IW
Sbjct: 3   ASKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIW 62
Query: 138 EVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTK 196
           +  G  +     P+  + + A + ++D+T++ T      W ++  R+ + + +  + G K
Sbjct: 63  DTAGQERYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNK 122
Query: 197 FDDFIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKLFDIPWTL 255
            D   +  ++ +     +A+AYA   N+ LF  +SA   +NVN +   I  KL   P + 
Sbjct: 123 ADLANKRMVEYE-----EAQAYADD-NSLLFMETSAKTAMNVNDLFLAIAKKL---PKSE 173
Query: 256 ERNL 259
            +NL
Sbjct: 174 PQNL 177

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 51.2 bits (121), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 47/189 (24%), Positives = 83/189 (43%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 5   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 64
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   + MFD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 65  LEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 121
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 122 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 164
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 165 -IGDPNLEF 172

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 50.8 bits (120), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 33/166 (19%), Positives = 76/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI L+G+  +GKT  + ++       G     G++ M KT+ + G ++   IW+  G  
Sbjct: 27  FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQE 86
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + + A++  +D+T   + + +  W ++  +  +   I +++G K D   +
Sbjct: 87  RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER 146
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +  Q     +A  +++A +     +SA  + NV K+   +  +L
Sbjct: 147 REVSQQ-----RAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 187

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 50.8 bits (120), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 36/161 (22%), Positives = 74/161 (45%), Gaps = 8/161 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ ++G+  +GKTSFL +Y  D          G++   KT+     R+   IW+  G  
Sbjct: 24  FKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQE 83
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFDDFIQ 202
           + +       + ++  + M+D+T+  +  +V  W  Q +  +   A  I++G K D    
Sbjct: 84  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCD---- 139
Query: 203 LPIDLQWTIASQ-ARAYAKALNATLFFSSATYNINVNKILK 242
             ++ +  + ++  +  A+ L    F +SA  NI+V +  +
Sbjct: 140 --MEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFE 178

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score = 50.8 bits (120), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 43/176 (24%), Positives = 80/176 (45%), Gaps = 21/176 (11%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI ++GD ++GKT    ++             G++  ++ + + G RI   +W+  G  
Sbjct: 30  FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE 89
Query: 144 KAQDHLPVACKDSI-AILFMFDLTSRCTLKSVIRWYQQARKCNQ----TAIP-IIIGTKF 197
           + +  +      ++ A++F++D T+  +  S+  W ++   C Q      IP I++G K 
Sbjct: 90  RFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEE---CKQHLLANDIPRILVGNKC 146
Query: 198 D--DFIQLPIDLQWTIASQARAYAKALNATLFFSSATY---NINVNKILKFITAKL 248
           D    IQ+P DL       A+ +A   +  LF +SA     N +V  I   +  KL
Sbjct: 147 DLRSAIQVPTDL-------AQKFADTHSXPLFETSAKNPNDNDHVEAIFXTLAHKL 195

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 50.8 bits (120), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 47/189 (24%), Positives = 83/189 (43%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 11  VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 70
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   + MFD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 71  LEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 127
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 128 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 170
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 171 -IGDPNLEF 178

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 50.4 bits (119), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 46/178 (25%), Positives = 78/178 (43%), Gaps = 17/178 (9%)
Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLL--VRGA---- 130
           D D    +K+  LGD  +GKT+FL +Y  ++         G++  +K ++   +GA    
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 131 ----RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ 186
               ++   +W+  G  + +       +D+   L  FDLTS+ +  +V  W  Q +    
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAY 124
Query: 187 TAIP--IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK 242
              P  ++IG K D    LP D +     QAR  A+      F +SA    NV K ++
Sbjct: 125 CENPDIVLIGNKAD----LP-DQREVNERQARELAEKYGIPYFETSAATGQNVEKSVE 177

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 50.4 bits (119), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 47/189 (24%), Positives = 83/189 (43%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   + MFD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 69  LEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 125
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 126 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 168
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 169 -IGDPNLEF 176

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 50.4 bits (119), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 42/172 (24%), Positives = 75/172 (43%), Gaps = 11/172 (6%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
             K+ L+GD   GKT+F+++++  E E+      G+ +   +       I + +W+  G 
Sbjct: 5   TFKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGL 64
Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDDF 200
            K          ++   + MFD+TSR T K+V  W++   R C    IPI++ G K D  
Sbjct: 65  EKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCEN--IPIVLCGNKVD-- 120
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP 252
                  +  + ++   + +  N   +  SA  N N  K   ++  KL   P
Sbjct: 121 -----VKERKVKAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNP 167

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 42/172 (24%), Positives = 75/172 (43%), Gaps = 11/172 (6%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
             K+ L+GD   GKT+F+++++  E E+      G+ +   +       I + +W+  G 
Sbjct: 4   TFKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGL 63
Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDDF 200
            K          ++   + MFD+TSR T K+V  W++   R C    IPI++ G K D  
Sbjct: 64  EKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCEN--IPIVLCGNKVD-- 119
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP 252
                  +  + ++   + +  N   +  SA  N N  K   ++  KL   P
Sbjct: 120 -----VKERKVKAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNP 166

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 46/178 (25%), Positives = 78/178 (43%), Gaps = 17/178 (9%)
Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLL--VRGA---- 130
           D D    +K+  LGD  +GKT+FL +Y  ++         G++  +K ++   +GA    
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 131 ----RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ 186
               ++   +W+  G  + +       +D+   L  FDLTS+ +  +V  W  Q +    
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAY 124
Query: 187 TAIP--IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK 242
              P  ++IG K D    LP D +     QAR  A+      F +SA    NV K ++
Sbjct: 125 CENPDIVLIGNKAD----LP-DQREVNERQARELAEKYGIPYFETSAATGQNVEKSVE 177

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/123 (23%), Positives = 61/123 (49%), Gaps = 10/123 (8%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE-----GLNMMDKTLLVRGARISYSI 136
           VA K+ L+GD  +GKT  L ++    K+     G      G++  +K L V G ++   +
Sbjct: 9   VAFKVMLVGDSGVGKTCLLVRF----KDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQM 64
Query: 137 WEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGT 195
           W+  G  + +       +D+ A+L ++D+T++ +  ++  W  +  +  Q  + + ++G 
Sbjct: 65  WDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGN 124
Query: 196 KFD 198
           K D
Sbjct: 125 KVD 127

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 42/171 (24%), Positives = 75/171 (43%), Gaps = 11/171 (6%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD   GKT+F+++++  E E+      G+ +   +       I + +W+  G  
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 72
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDDFI 201
           K          ++   + MFD+TSR T K+V  W++   R C    IPI++ G K D   
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCEN--IPIVLCGNKVD--- 127
Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP 252
                 +  + ++   + +  N   +  SA  N N  K   ++  KL   P
Sbjct: 128 ----VKERKVKAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNP 174

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 46/189 (24%), Positives = 82/189 (43%), Gaps = 23/189 (12%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 68
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDD 199
             K           +   +  FD+TSR T K+V  W++   R C    IPI++ G K D 
Sbjct: 69  QEKFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVRVCEN--IPIVLCGNKVD- 125
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNL 259
            I+        + +++  + +  N   +  SA  N N  K   ++  KL           
Sbjct: 126 -IK-----DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKL----------- 168
Query: 260 TIGEPIIDF 268
            IG+P ++F
Sbjct: 169 -IGDPNLEF 176

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 42/180 (23%), Positives = 75/180 (41%), Gaps = 17/180 (9%)
Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-------- 128
           D D    +K   LGD  +GKTS L +Y   +         G++  +K ++ R        
Sbjct: 5   DGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAV 64
Query: 129 --GARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ 186
             G RI   +W+  G  + +       +D++  L +FDLT+  +  +V  W  Q +    
Sbjct: 65  GRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAY 124
Query: 187 TAIPIII--GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI 244
           +  P I+  G K D   Q  +  +     +AR  A+      F +SA    N++  ++ +
Sbjct: 125 SENPDIVLCGNKSDLEDQRAVKEE-----EARELAEKYGIPYFETSAANGTNISHAIEML 179

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/117 (22%), Positives = 58/117 (49%), Gaps = 2/117 (1%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARI-SYSIWEVTGD 142
            KI L+GD  +GK++ L ++  DE         G+    K++ ++  +I    IW+  G 
Sbjct: 8   FKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAGQ 67
Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD 198
            + +       + ++  L ++D+T + + +++ +W ++ R    + I I ++G K D
Sbjct: 68  ERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSD 124

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/170 (20%), Positives = 76/170 (44%), Gaps = 5/170 (2%)
Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           + ++K+ LLG+  +GK+S + ++V ++  +   P  G   + + + +    + + IW+  
Sbjct: 1   VTSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTA 60
Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDD 199
           G  +     P   +++ A L ++D+T   +      W ++   + ++  I  ++G K D 
Sbjct: 61  GQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKID- 119
Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
              L    +  +A +           LFF +SA    NVN +   I  K+
Sbjct: 120 --XLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 34/166 (20%), Positives = 76/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  
Sbjct: 26  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 85
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   +
Sbjct: 86  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 145
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +D      + A+ +A +L      +SA    NV +    + A++
Sbjct: 146 KVVDY-----TTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 186

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 62/125 (49%), Gaps = 4/125 (3%)
Query: 76  LDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYS 135
           +D +  V  KI ++GD   GKT+ L  +  D   +   P    N    +  +   RI  S
Sbjct: 16  MDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELS 74
Query: 136 IWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARK-CNQTAIPIII 193
           +W+ +G     +  P++  DS A+L  FD++   TL SV+ +W  + ++ C  T + +++
Sbjct: 75  LWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKM-LLV 133
Query: 194 GTKFD 198
           G K D
Sbjct: 134 GCKSD 138

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 34/166 (20%), Positives = 76/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  
Sbjct: 7   FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 66
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   +
Sbjct: 67  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 126
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +D      + A+ +A +L      +SA    NV +    + A++
Sbjct: 127 KVVDY-----TTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 48.1 bits (113), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 34/166 (20%), Positives = 76/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  
Sbjct: 7   FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 66
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   +
Sbjct: 67  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 126
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +D      + A+ +A +L      +SA    NV +    + A++
Sbjct: 127 KVVDY-----TTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 48.1 bits (113), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 34/166 (20%), Positives = 76/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  
Sbjct: 9   FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 68
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   +
Sbjct: 69  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDLTTK 128
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +D      + A+ +A +L      +SA    NV +    + A++
Sbjct: 129 KVVDY-----TTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 169

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score = 47.8 bits (112), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 34/166 (20%), Positives = 75/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK   L ++  D   +      G++   +T+ + G  I   IW+  G  
Sbjct: 17  FKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 76
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   +
Sbjct: 77  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 136
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +D      + A+ +A +L      +SA    NV +    + A++
Sbjct: 137 KVVDY-----TTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 47.8 bits (112), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 37/172 (21%), Positives = 76/172 (44%), Gaps = 12/172 (6%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI L+GD  +GK++ L ++  DE         G+    +T+ V   +I   IW+  G  
Sbjct: 11  FKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDTAGLE 70
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFD--DF 200
           + +       + ++  L ++D++   + ++   W  + R+     + + +IG K D    
Sbjct: 71  RYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNKSDLAHL 130
Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNI-NVNKILKFITAKLFDI 251
             +P D       +A+ +A   N  LF  ++  N  NV+K  + +   +F +
Sbjct: 131 RAVPTD-------EAKNFAME-NQMLFTETSALNSDNVDKAFRELIVAIFQM 174

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 47.8 bits (112), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 34/165 (20%), Positives = 76/165 (46%), Gaps = 6/165 (3%)
Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  +
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQL 203
            +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   + 
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK 120
Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            +D      + A+ +A +L      +SA    NV +    + A++
Sbjct: 121 VVDY-----TTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 160

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score = 47.8 bits (112), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 34/166 (20%), Positives = 76/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  
Sbjct: 10  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 69
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   +
Sbjct: 70  RFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTK 129
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +D      + A+ +A +L      +SA    NV +    + A++
Sbjct: 130 KVVD-----NTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEI 170

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 47.8 bits (112), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 34/166 (20%), Positives = 75/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  
Sbjct: 34  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 93
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   +
Sbjct: 94  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 153
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +D      + A+ +A +L      +SA    NV +      A++
Sbjct: 154 KVVDY-----TTAKEFADSLGIPFLETSAKNATNVEQSFXTXAAEI 194

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score = 47.8 bits (112), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 34/166 (20%), Positives = 76/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  
Sbjct: 10  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 69
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   +
Sbjct: 70  RFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTK 129
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +D      + A+ +A +L      +SA    NV +    + A++
Sbjct: 130 KVVD-----NTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEI 170

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score = 47.8 bits (112), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 34/166 (20%), Positives = 76/166 (45%), Gaps = 6/166 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  
Sbjct: 17  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 76
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D   +
Sbjct: 77  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 136
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +D      + A+ +A +L      +SA    NV +    + A++
Sbjct: 137 KVVDY-----TTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 58  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 58  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 58  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/110 (25%), Positives = 53/110 (48%), Gaps = 1/110 (0%)
Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV-RGARISYSIWEVTGDA 143
           KI L+GD  +GKT+++ + +    E+  +   G      T L  +G  I +++W+  G  
Sbjct: 13  KICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQE 72
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIII 193
           K      V    +   +  FD+TSR T +++ RW ++ +       PI++
Sbjct: 73  KKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVV 122

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 4/119 (3%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  KI ++GD   GKT+ L  +  D   +   P    N    +  +   RI  S+W+ +G
Sbjct: 6   VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSG 64
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARK-CNQTAIPIIIGTKFD 198
                +  P++  DS A+L  FD++   TL SV+ +W  + ++ C  T + +++G K D
Sbjct: 65  SPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKM-LLVGCKSD 122

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 58  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 58  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 58  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 30  AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 84
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 85  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 143
Query: 197 FD 198
            D
Sbjct: 144 LD 145

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 22  AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 76
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 77  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 135
Query: 197 FD 198
            D
Sbjct: 136 LD 137

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 30  AIKCVVVGDGAVGKTCLLISYTTN-----ALPGEYIPTVFDNYSANVMVDGKPVNLGLWD 84
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 85  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 143
Query: 197 FD 198
            D
Sbjct: 144 LD 145

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 58  TAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 58  TAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 5   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 59
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 60  TAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 118
Query: 197 FD 198
            D
Sbjct: 119 LD 120

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 7   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 61
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 62  TAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 120
Query: 197 FD 198
            D
Sbjct: 121 LD 122

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/125 (25%), Positives = 58/125 (46%), Gaps = 12/125 (9%)
Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYS 135
           ++ A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  
Sbjct: 1   SMQAIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLG 55
Query: 136 IWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIII 193
           +W+  G        P++   +   L  F L S  + ++V  +WY + R  C  T I +++
Sbjct: 56  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPI-LLV 114
Query: 194 GTKFD 198
           GTK D
Sbjct: 115 GTKLD 119

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/125 (25%), Positives = 58/125 (46%), Gaps = 12/125 (9%)
Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYS 135
           ++ A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  
Sbjct: 1   SMQAIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLG 55
Query: 136 IWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIII 193
           +W+  G        P++   +   L  F L S  + ++V  +WY + R  C  T I +++
Sbjct: 56  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPI-LLV 114
Query: 194 GTKFD 198
           GTK D
Sbjct: 115 GTKLD 119

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/122 (26%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I +++GTK
Sbjct: 58  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPI-LLVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 41/178 (23%), Positives = 80/178 (44%), Gaps = 13/178 (7%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GKT  L ++  D          G++   +T+ + G RI   IW+  G  
Sbjct: 9   FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQE 68
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQ 202
           + +       + ++ I+ ++D+T+  +  ++  W +   +     +  +I+G K D   +
Sbjct: 69  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 128
Query: 203 LPIDLQWTIASQARAYAKALNATLFF--SSATYNINVNKILKFITAKLFDIPWTLERN 258
             +       S+ R    AL+  + F  +SA  NINV     F  A+  DI   +++N
Sbjct: 129 RQV-------SKERGEKLALDYGIKFMETSAKANINVENAF-FTLAR--DIKAKMDKN 176

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMM----DKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +  +       ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 58  TAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 33/125 (26%), Positives = 58/125 (46%), Gaps = 12/125 (9%)
Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYS 135
           ++ A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  
Sbjct: 3   HMQAIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLG 57
Query: 136 IWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIII 193
           +W+  G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++
Sbjct: 58  LWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILV 116
Query: 194 GTKFD 198
           GTK D
Sbjct: 117 GTKLD 121

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 58  TAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 4/118 (3%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
           ++K+ L+GD   GKTS L  +      +  +P      M   L V+G  +   IW+  G 
Sbjct: 34  SVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYM-VNLQVKGKPVHLHIWDTAGQ 92
Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARK-CNQTAIPIIIGTKFD 198
                  P+   D+  +L  FD+TS  +  ++  RWY +    C +  I I++G K D
Sbjct: 93  DDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPI-IVVGCKTD 149

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 27/116 (23%), Positives = 52/116 (44%), Gaps = 1/116 (0%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++G    GK+  L +++ ++ +Q  +   G+    + + V G  +   IW+  G  
Sbjct: 26  FKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQE 85
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIII-GTKFD 198
           + +       + +   L ++D+TSR T  S+  W   AR      I +I+ G K D
Sbjct: 86  RFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKD 141

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 43/174 (24%), Positives = 74/174 (42%), Gaps = 11/174 (6%)
Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD   GKT+ L+    D   +   P    N     L     R+  S+W+ +G   
Sbjct: 12  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-ACLETEEQRVELSLWDTSGSPY 70
Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQA--RKCNQTAIPIIIGTKFD---- 198
             +  P+   DS A+L  FD++   T+ S ++ ++      C  T + ++IG K D    
Sbjct: 71  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRV-LLIGCKTDLRTD 129
Query: 199 --DFIQLPIDLQWTIA-SQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
               ++L    Q  I+  Q  A AK L A ++   + +    +    F TA + 
Sbjct: 130 LSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASML 183

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+
Sbjct: 30  AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 84
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK
Sbjct: 85  TAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTK 143
Query: 197 FD 198
            D
Sbjct: 144 LD 145

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 43/174 (24%), Positives = 74/174 (42%), Gaps = 11/174 (6%)
Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD   GKT+ L+    D   +   P    N     L     R+  S+W+ +G   
Sbjct: 13  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-ACLETEEQRVELSLWDTSGSPY 71
Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQA--RKCNQTAIPIIIGTKFD---- 198
             +  P+   DS A+L  FD++   T+ S ++ ++      C  T + ++IG K D    
Sbjct: 72  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRV-LLIGCKTDLRTD 130
Query: 199 --DFIQLPIDLQWTIA-SQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
               ++L    Q  I+  Q  A AK L A ++   + +    +    F TA + 
Sbjct: 131 LSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASML 184

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 36/157 (22%), Positives = 71/157 (45%), Gaps = 10/157 (6%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GKT  L ++  D          G++   +T+ + G RI   IW+  G  
Sbjct: 7   FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQE 66
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQ 202
           + +       + ++ I+ ++D+T+  +  ++  W +   +     +  +I+G K D   +
Sbjct: 67  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 126
Query: 203 LPIDLQWTIASQARAYAKALNATLFF--SSATYNINV 237
             +       S+ R    AL+  + F  +SA  NINV
Sbjct: 127 RQV-------SKERGEKLALDYGIKFMETSAKANINV 156

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 43/174 (24%), Positives = 74/174 (42%), Gaps = 11/174 (6%)
Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD   GKT+ L+    D   +   P    N     L     R+  S+W+ +G   
Sbjct: 29  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-ACLETEEQRVELSLWDTSGSPY 87
Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQA--RKCNQTAIPIIIGTKFD---- 198
             +  P+   DS A+L  FD++   T+ S ++ ++      C  T + ++IG K D    
Sbjct: 88  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRV-LLIGCKTDLRTD 146
Query: 199 --DFIQLPIDLQWTIA-SQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
               ++L    Q  I+  Q  A AK L A ++   + +    +    F TA + 
Sbjct: 147 LSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASML 200

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 32/127 (25%), Positives = 57/127 (44%), Gaps = 12/127 (9%)
Query: 78  ADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARIS 133
           +  + A+K  ++GD  +GK   L  Y  +       PGE +    +     ++V G  ++
Sbjct: 5   SSGMQAIKCVVVGDGAVGKNCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVN 59
Query: 134 YSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQARK-CNQTAIPI 191
             +W+  G        P++   +   L  F L S  + ++V  +WY + R  C  T I I
Sbjct: 60  LGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-I 118
Query: 192 IIGTKFD 198
           ++GTK D
Sbjct: 119 LVGTKLD 125

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 35/157 (22%), Positives = 67/157 (42%), Gaps = 6/157 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++G+   GK+  L +++  + +   +   G+    K + V G  +   IW+  G  
Sbjct: 11  FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQE 70
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + +   L ++D+TSR T  ++  W   AR   +Q  + I+ G K D    
Sbjct: 71  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKD---- 126
Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK 239
           L  D + T    +R +A+        +SA    NV +
Sbjct: 127 LDADREVTFLEASR-FAQENELMFLETSALTGENVEE 162

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/118 (26%), Positives = 53/118 (44%), Gaps = 4/118 (3%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
           A+K  ++GD  +GKT  L  Y  +       P    +     ++V G  ++  +W+  G 
Sbjct: 13  AIKCVVVGDGAVGKTCLLISYTTNAFSGEYIP-TVFDNYSANVMVDGKPVNLGLWDTAGQ 71
Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTKFD 198
                  P++   +   L  F L S  + ++V  +WY + R  C  T I I++GTK D
Sbjct: 72  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI-ILVGTKLD 128

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 30/134 (22%), Positives = 58/134 (43%), Gaps = 5/134 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++G+   GK+  L +++  + +   +   G+    K + V G  +   IW+  G  
Sbjct: 12  FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQE 71
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + +   L ++D+TSR T  ++  W   AR   +Q  + I+ G K D    
Sbjct: 72  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKD---- 127
Query: 203 LPIDLQWTIASQAR 216
           L  D + T    +R
Sbjct: 128 LDADREVTFLEASR 141

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 26/116 (22%), Positives = 53/116 (45%), Gaps = 1/116 (0%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+G+  +GK+  L ++  D          G++   KT+ + G  +   IW+  G  
Sbjct: 22  FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 81
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFD 198
           + +       + S  I+ ++D+T + +   V  W Q+  R    T + +++G K D
Sbjct: 82  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCD 137

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/112 (21%), Positives = 54/112 (48%), Gaps = 1/112 (0%)
Query: 88  LLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD 147
           L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  + + 
Sbjct: 3   LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 62
Query: 148 HLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFD 198
                 + +  I+ ++D+T + +  +V +W Q+  R  ++    +++G K D
Sbjct: 63  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCD 114

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 26/120 (21%), Positives = 55/120 (45%), Gaps = 5/120 (4%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ LLGD  +GK+S + +YV ++ +       G+  +++ L V G  ++  IW+  G  
Sbjct: 8   LKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQE 67
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-----IIIGTKFD 198
           + +       + +   L  F +  R + +++  W ++         P     +++G K D
Sbjct: 68  RFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKVD 127

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 31/169 (18%), Positives = 75/169 (44%), Gaps = 11/169 (6%)
Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           VA+K+ ++G+  +GK+S +++Y      +      G++ +++ + V    +   +W+  G
Sbjct: 4   VAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAG 63
Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFI 201
             +         + + A + +F  T R + +++  W ++        +   +G      +
Sbjct: 64  QEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREK--------VVAEVGDIPTALV 115
Query: 202 QLPIDL---QWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAK 247
           Q  IDL         +A   AK L    + +S   ++NV+++ K++  K
Sbjct: 116 QNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEK 164

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 26/116 (22%), Positives = 53/116 (45%), Gaps = 1/116 (0%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+G+  +GK+  L ++  D          G++   KT+ + G  +   IW+  G  
Sbjct: 9   FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 68
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFD 198
           + +       + S  I+ ++D+T + +   V  W Q+  R    T + +++G K D
Sbjct: 69  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCD 124

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 26/116 (22%), Positives = 53/116 (45%), Gaps = 1/116 (0%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+G+  +GK+  L ++  D          G++   KT+ + G  +   IW+  G  
Sbjct: 9   FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 68
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFD 198
           + +       + S  I+ ++D+T + +   V  W Q+  R    T + +++G K D
Sbjct: 69  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCD 124

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/116 (23%), Positives = 52/116 (44%), Gaps = 2/116 (1%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +K   +GD  +GKT  L  Y G+       P    +     ++V G+ ++  +W+  G  
Sbjct: 7   IKCVTVGDGAVGKTCMLISYTGNTFPTDYVP-TVFDNFSANVVVDGSTVNLGLWDTAGQE 65
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPII-IGTKFD 198
                 P++ + +   L  F L S+ + +++ + +    K     IPI+ +GTK D
Sbjct: 66  DYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPELKHYAPGIPIVLVGTKLD 121

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/134 (22%), Positives = 58/134 (43%), Gaps = 5/134 (3%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++G+   GK+  L +++  + +   +   G+    K + V G  +   IW+  G  
Sbjct: 9   FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGLE 68
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + +   L ++D+TSR T  ++  W   AR   +Q  + I+ G K D    
Sbjct: 69  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKD---- 124
Query: 203 LPIDLQWTIASQAR 216
           L  D + T    +R
Sbjct: 125 LDADREVTFLEASR 138

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 31/125 (24%), Positives = 57/125 (45%), Gaps = 12/125 (9%)
Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYS 135
           ++ A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V    ++  
Sbjct: 7   SMQAIKCVVVGDVAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDSKPVNLG 61
Query: 136 IWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIII 193
           +W+  G        P++   +   L  F L S  + ++V  +W+ + R  C  T I I++
Sbjct: 62  LWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPI-ILV 120
Query: 194 GTKFD 198
           GTK D
Sbjct: 121 GTKLD 125

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 31/122 (25%), Positives = 55/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V    ++  +W+
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDSKPVNLGLWD 57
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +W+ + R  C  T I I++GTK
Sbjct: 58  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPI-ILVGTK 116
Query: 197 FD 198
            D
Sbjct: 117 LD 118

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 31/122 (25%), Positives = 55/122 (45%), Gaps = 12/122 (9%)
Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y  +       PGE +    +     ++V    ++  +W+
Sbjct: 9   AIKCVVVGDVAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDSKPVNLGLWD 63
Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQAR-KCNQTAIPIIIGTK 196
             G        P++   +   L  F L S  + ++V  +W+ + R  C  T I I++GTK
Sbjct: 64  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPI-ILVGTK 122
Query: 197 FD 198
            D
Sbjct: 123 LD 124

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 53/121 (43%), Gaps = 12/121 (9%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWEV 139
           +K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+ 
Sbjct: 156 IKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWDT 210
Query: 140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQARK-CNQTAIPIIIGTKF 197
            G        P++   +   L  F L S  +   V  +WY + R  C  T I I++GTK 
Sbjct: 211 AGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPI-ILVGTKL 269
Query: 198 D 198
           D
Sbjct: 270 D 270

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 53/121 (43%), Gaps = 12/121 (9%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWEV 139
           +K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+ 
Sbjct: 156 IKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWDT 210
Query: 140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQARK-CNQTAIPIIIGTKF 197
            G        P++   +   L  F L S  +   V  +WY + R  C  T I I++GTK 
Sbjct: 211 AGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPI-ILVGTKL 269
Query: 198 D 198
           D
Sbjct: 270 D 270

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 24/116 (20%), Positives = 53/116 (45%), Gaps = 1/116 (0%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D          G++   +T+ +    +   IW+  G  
Sbjct: 10  FKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQE 69
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFD 198
           + +       + +  I+ ++D+T R +  +V +W Q+  R   +    +++G K D
Sbjct: 70  RFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCD 125

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 53/121 (43%), Gaps = 12/121 (9%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL----NMMDKTLLVRGARISYSIWEV 139
           +K  ++GD  +GKT  L  Y  +       PGE +    +     ++V G  ++  +W+ 
Sbjct: 156 IKCVVVGDGAVGKTCLLISYTTN-----AFPGEYIPTVFDNYSANVMVDGKPVNLGLWDT 210
Query: 140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-IRWYQQARK-CNQTAIPIIIGTKF 197
            G        P++   +   L  F L S  +   V  +WY + R  C  T I I++GTK 
Sbjct: 211 AGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPI-ILVGTKL 269
Query: 198 D 198
           D
Sbjct: 270 D 270

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 25/116 (21%), Positives = 50/116 (43%), Gaps = 1/116 (0%)
Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++GD  +GK+  L ++     +       G+    + + + G +I   IW+  G  
Sbjct: 11  FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQE 70
Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFD 198
             +       + +   L ++D+T R T   +  W + AR+  N   + ++IG K D
Sbjct: 71  SFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSD 126

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	268
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	1e-12
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	1e-12
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	4e-12
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-11
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-11
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	4e-11
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-10
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-10
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	1e-10
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	1e-10
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	2e-10
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	2e-10
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	2e-10
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	2e-10
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	3e-10
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	3e-10
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	3e-10
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	3e-10
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	3e-10
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	3e-10
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	4e-10
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	5e-10
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	6e-10
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	7e-10
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	8e-10
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	8e-10
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	9e-10
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	9e-10
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	9e-10
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-09
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	1e-09
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-09
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	2e-09
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-09
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	3e-09
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	4e-09
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	4e-09
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	5e-09
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	5e-09
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-08
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	1e-08
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	1e-08
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	2e-08
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	2e-08
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	2e-08
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	2e-08
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	3e-08
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	3e-08
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	3e-08
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	4e-08
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	4e-08
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	4e-08
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	5e-08
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	6e-08
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	6e-08
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	6e-08
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	7e-08
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	9e-08
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	1e-07
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	1e-07
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	2e-07
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	3e-07
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	3e-07
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	3e-07
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	3e-07
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	4e-07
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	5e-07
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	5e-07
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	6e-07
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	7e-07
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-06
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	2e-06
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	2e-06
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	4e-06
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	4e-06
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	5e-06
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	5e-06
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	6e-06
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	6e-06
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	7e-06
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	2e-05
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	3e-05
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	1e-04
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	6e-04

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score = 64.1 bits (157), Expect = 1e-12
 Identities = 35/161 (21%), Positives = 71/161 (44%), Gaps = 15/161 (9%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ ++G+   GK++ + +Y+     Q  SP  G     K ++V G      I +  G  
Sbjct: 21  LKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGGR--FKKEIVVDGQSYLLLIRDEGG-- 76

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDDFI 201
                L        A++F+F L    + ++V  ++ +     N + +P+++ GT+     
Sbjct: 77  --PPELQ-FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDA--- 130

Query: 202 QLPIDLQWTI-ASQARAYAKALNATLFF-SSATYNINVNKI 240
            +       I  S+AR  +  L    ++ + ATY +NV ++
Sbjct: 131 -ISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERV 170

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 66.2 bits (161), Expect = 1e-12
 Identities = 30/182 (16%), Positives = 57/182 (31%), Gaps = 16/182 (8%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLL--------VRGARISYS 135
           +K+ L+GD   GKTS L++ +G+  +   S   GLN++ K                  + 
Sbjct: 42  IKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFH 101

Query: 136 IWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGT 195
            W+  G              S   + + D  +         W +   K    +  I++  
Sbjct: 102 FWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTDSNKH---YWLRHIEKYGGKSPVIVVMN 158

Query: 196 KFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTL 255
           K D+     I+ +     +      A+       S      V  I K + + +       
Sbjct: 159 KIDENPSYNIEQK-----KINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLHPDSIY 213

Query: 256 ER 257
             
Sbjct: 214 GT 215

>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 Length = 170

 Score = 62.1 bits (151), Expect = 4e-12
 Identities = 33/173 (19%), Positives = 74/173 (42%), Gaps = 11/173 (6%)

Query: 81  LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           + ++K+ LLG+  +GK+S + ++V ++  +   P  G   + + + +    + + IW+  
Sbjct: 1   VTSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTA 60

Query: 141 GDAKAQDHL----PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGT 195
           G    Q+      P   +++ A L ++D+T   +      W ++  +  ++  I  ++G 
Sbjct: 61  G----QERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGN 116

Query: 196 KFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
           K D         +     +    A+      F +SA    NVN +   I  K+
Sbjct: 117 KID--XLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>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} 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* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score = 61.9 bits (151), Expect = 1e-11
 Identities = 38/177 (21%), Positives = 75/177 (42%), Gaps = 9/177 (5%)

Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSI 136
             +  V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++
Sbjct: 9   QGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNV 68

Query: 137 WEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTK 196
           W+  G  K           +   + MFD+TSR T K+V  W++   +  +    ++ G K
Sbjct: 69  WDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNK 128

Query: 197 FDDFIQLPIDL-QWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP 252
                   +D+    + +++  + +  N   +  SA  N N  K   ++  KL   P
Sbjct: 129 --------VDIKDRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDP 177

>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} Length = 218

 Score = 61.6 bits (150), Expect = 1e-11
 Identities = 38/182 (20%), Positives = 63/182 (34%), Gaps = 29/182 (15%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL-NMMDKTLLVRGARISYSIWEVTGD 142
            KI L+GD  +GKT+++ + +    E+  +   G  N     L  +G  I +++W+  G 
Sbjct: 12  YKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQ 71

Query: 143 AK-----------AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI 191
            K           A              +  FD+TSR T +++ RW ++ +       PI
Sbjct: 72  EKKAVLKDVYYIGAS-----------GAILFFDVTSRITCQNLARWVKEFQAVVGNEAPI 120

Query: 192 I-IGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
           +    K D       + Q           K  N   F  SA    N       +      
Sbjct: 121 VVCANKIDI-----KNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTG 175

Query: 251 IP 252
            P
Sbjct: 176 RP 177

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score = 60.0 bits (146), Expect = 4e-11
 Identities = 35/168 (20%), Positives = 74/168 (44%), Gaps = 6/168 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+  LG+  +GKTS + +++ D  +       G++ + KT+ +    +   +W+  G  +
Sbjct: 18  KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLER 77

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
            +  +P   +DS   + ++D+T+  + +   +W    R       I +++G K D     
Sbjct: 78  FRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDL---- 133

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             D +     +    AK LN     +SA    NV ++ + + A L  +
Sbjct: 134 -ADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGM 180

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score = 58.4 bits (142), Expect = 1e-10
 Identities = 38/171 (22%), Positives = 78/171 (45%), Gaps = 11/171 (6%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           L++ ++G   +GKTS +E++  D   +      G++   KT+ +RG +I   IW+  G  
Sbjct: 27  LQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQE 86

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           +         + +  I+ ++D+T + T   + +W +   K  ++ A  +++G K D    
Sbjct: 87  RFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD 146

Query: 203 LPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNK----ILKFITAKL 248
             I        Q   +A+ +    F  +SA  N NV++    ++  I  K+
Sbjct: 147 REIT-----RQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 192

>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} Length = 191

 Score = 58.4 bits (142), Expect = 1e-10
 Identities = 37/170 (21%), Positives = 73/170 (42%), Gaps = 6/170 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ ++G+  +GKTSFL +Y  D          G++   KT+     R+   IW+  G  
Sbjct: 24  FKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQE 83

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + ++  + M+D+T+  +  +V  W  Q +      A  I++G K D   +
Sbjct: 84  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEE 143

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP 252
             +        + +  A+ L    F +SA  NI+V +  + +   + D  
Sbjct: 144 RVVP-----TEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKM 188

>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} Length = 199

 Score = 58.4 bits (142), Expect = 1e-10
 Identities = 35/166 (21%), Positives = 70/166 (42%), Gaps = 2/166 (1%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           KI L GD  +GK+SFL +   +E  +  S   G++   KTL+V G R    +W+  G  +
Sbjct: 30  KIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQER 89

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
            +       + +  +L ++D+T   +  ++  W        ++T   +++G K D     
Sbjct: 90  FRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTA 149

Query: 204 PIDLQWTI-ASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             + Q  +        A    A    +SA    N+ + +  +  ++
Sbjct: 150 ATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREV 195

>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* Length = 170

 Score = 57.5 bits (140), Expect = 1e-10
 Identities = 38/167 (22%), Positives = 81/167 (48%), Gaps = 6/167 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ LLG+  +GKTS + +Y  ++         G + + K L + G R++ +IW+  G  +
Sbjct: 8   KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQER 67

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
                P+  +DS   + ++D+T   + + V  W ++ RK         I+G K D   + 
Sbjct: 68  FHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKER 127

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
            + +Q     +A +YA+++ A  + +SA  N  + ++   +  ++ +
Sbjct: 128 HVSIQ-----EAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score = 58.2 bits (141), Expect = 2e-10
 Identities = 47/200 (23%), Positives = 77/200 (38%), Gaps = 22/200 (11%)

Query: 57  SGLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE 116
           SGLVP  +   +L    + +        K  ++GD  +GKT  L  Y  +       P  
Sbjct: 12  SGLVPRGSHMENLYFQGQAI--------KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV 63

Query: 117 GLNMMDKTLLVRGARISYSIWEVTGDAKAQDHL-PVACKDSIAILFMFDLTSRCTLKSVI 175
             N     ++V G  ++  +W+ T   +  D L P++   +   L  F L S  + ++V 
Sbjct: 64  FDNYS-ANVMVDGKPVNLGLWD-TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVR 121

Query: 176 -RWYQQARKCNQTAIPIIIGTKFD------DFIQLPIDLQWTIA-SQARAYAKALNATLF 227
            +WY + R        I++GTK D         +L       I   Q  A AK + A  +
Sbjct: 122 AKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY 181

Query: 228 F-SSATYNINVNKILKFITA 246
              SA     +  +  F  A
Sbjct: 182 LECSALTQRGLKTV--FDEA 199

>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 Length = 170

 Score = 57.6 bits (140), Expect = 2e-10
 Identities = 40/169 (23%), Positives = 80/169 (47%), Gaps = 7/169 (4%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +KI L+GD  +GK+  L ++V D+         G++   KT+ + G ++   IW+  G  
Sbjct: 4   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE 63

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + ++ I+ ++D+T   T  ++ +W++   +  N  A  +++G K D    
Sbjct: 64  RFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD---- 119

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             ++ +   A Q  A AK L      SSA  + NVN+I   +   + + 
Sbjct: 120 --METRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK 166

>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* Length = 199

 Score = 57.7 bits (140), Expect = 2e-10
 Identities = 37/168 (22%), Positives = 78/168 (46%), Gaps = 6/168 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD  +GK++ L ++  +E         G+    +++ V G  I   IW+  G  +
Sbjct: 7   KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQER 66

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
            +       + ++  L ++D+    T ++V RW ++ R   +   + +++G K D     
Sbjct: 67  YRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLR 126

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
            +        +ARA+A+  N +   +SA  + NV +  K I  +++ I
Sbjct: 127 AVPTD-----EARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRI 169

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score = 57.7 bits (140), Expect = 2e-10
 Identities = 35/170 (20%), Positives = 75/170 (44%), Gaps = 11/170 (6%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD  +GKT  ++++      +      G++   KTL ++G R+   IW+  G  +
Sbjct: 31  KLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQER 90

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFD--DFI 201
            +       + +   +  +D+T R +  SV  W +  RK      + ++IG K D  +  
Sbjct: 91  FRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELR 150

Query: 202 QLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKLFD 250
           ++ +        +A++ A+  +      +SA  + NV +    +  +L  
Sbjct: 151 EVSLA-------EAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIM 193

>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* Length = 189

 Score = 57.2 bits (139), Expect = 3e-10
 Identities = 40/169 (23%), Positives = 73/169 (43%), Gaps = 6/169 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+G+  +GKTSFL +Y  D          G++   KT+     RI   IW+  G  
Sbjct: 23  FKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQE 82

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + ++  L M+D+ ++ +  +V  W  Q +      A  I++G K D   +
Sbjct: 83  RYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDE 142

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             +  +       R  A  L    F +SA  NINV ++ + +   + + 
Sbjct: 143 RVVPAE-----DGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEK 186

>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 Length = 192

 Score = 57.2 bits (139), Expect = 3e-10
 Identities = 43/185 (23%), Positives = 89/185 (48%), Gaps = 12/185 (6%)

Query: 71  HSHRHLDA------DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKT 124
           H H H  +        +  LK+ LLGD  +GK+S + ++V D  +   SP  G + M KT
Sbjct: 5   HHHHHHSSGLVPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKT 64

Query: 125 LLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK- 183
           +        + IW+  G  +     P+  + S A + ++D+T + +  ++ +W ++ ++ 
Sbjct: 65  VPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEH 124

Query: 184 CNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKF 243
             +  +  I G K D       D++      A+ YA+++ A +  +SA   IN+ ++ + 
Sbjct: 125 GPENIVMAIAGNKCDL-----SDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQG 179

Query: 244 ITAKL 248
           I+ ++
Sbjct: 180 ISRQI 184

>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* Length = 191

 Score = 57.2 bits (139), Expect = 3e-10
 Identities = 34/167 (20%), Positives = 75/167 (44%), Gaps = 6/167 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK++ L ++  +E         G+    +++ V G  I   IW+  G  
Sbjct: 30  FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLE 89

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + ++  L ++D+    T ++V RW ++ R   +   + +++G K D    
Sbjct: 90  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 149

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
             +        +ARA+A+    +   +SA  + NV    + I  +++
Sbjct: 150 RAVPTD-----EARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score = 57.0 bits (138), Expect = 3e-10
 Identities = 35/169 (20%), Positives = 68/169 (40%), Gaps = 14/169 (8%)

Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
           ALKI ++GD  +GKT  L  +   E      P    N     +  +       +W+  G 
Sbjct: 23  ALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQ 81

Query: 143 AKAQDHL-PVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFD-- 198
            +  D L P++  DS  +L  F + +R +  ++  +W  + +    TA  +++G K D  
Sbjct: 82  -EEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLR 140

Query: 199 DFIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITA 246
                 +  Q     +     + L    +  +S+   I +N++  F  +
Sbjct: 141 KDGSDDVTKQ-----EGDDLCQKLGCVAYIEASSVAKIGLNEV--FEKS 182

>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* Length = 179

 Score = 56.8 bits (138), Expect = 3e-10
 Identities = 36/167 (21%), Positives = 74/167 (44%), Gaps = 10/167 (5%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+  LG+  +GKTS + +++ D  +       G++ + KT+ +    +   +W+  G  +
Sbjct: 16  KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER 75

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFD--DFI 201
            +  +P   +DS   + ++D+T+  +     +W    R       I +++G K D  D  
Sbjct: 76  FRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKR 135

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
           Q+  +       +    AK LN     +SA    NV ++ + + A L
Sbjct: 136 QVSTE-------EGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>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* Length = 214

 Score = 57.6 bits (139), Expect = 3e-10
 Identities = 45/177 (25%), Positives = 76/177 (42%), Gaps = 13/177 (7%)

Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
            +   K+ L+GD   GKT+ L+    D   +   P    N     L     R+  S+W+ 
Sbjct: 24  VVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-ACLETEEQRVELSLWDT 82

Query: 140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFD 198
           +G     +  P+   DS A+L  FD++   T+ S + +W  +      +   ++IG K D
Sbjct: 83  SGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTD 142

Query: 199 ------DFIQLPIDLQWTIA-SQARAYAKALNATLFF--SSATYNINVNKILKFITA 246
                   ++L    Q  I+  Q  A AK L A ++   S+ T   +++ I  F TA
Sbjct: 143 LRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSI--FRTA 197

>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 Length = 195

 Score = 56.9 bits (138), Expect = 4e-10
 Identities = 34/171 (19%), Positives = 74/171 (43%), Gaps = 8/171 (4%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LKI ++G+  +GK+S L ++  D  +   +   G++   KT+ V G +   +IW+  G  
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE 75

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPII-IGTKFDDFI 201
           + +   P   + +  ++ ++D+T R T   +  W  +    C +  I  + +G K D   
Sbjct: 76  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKID--- 132

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP 252
               + +    ++   +A+  +     +SA     V    + +  K+   P
Sbjct: 133 ---KENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTP 180

>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 ... Length = 186

 Score = 56.3 bits (136), Expect = 5e-10
 Identities = 41/172 (23%), Positives = 69/172 (40%), Gaps = 20/172 (11%)

Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMD----KTLLVRGARISYSIWE 138
           A+K  ++GD  +GKT  L  Y          PGE +  +       ++V G  ++  +W+
Sbjct: 5   AIKCVVVGDGAVGKTCLLISYT-----TNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWD 59

Query: 139 VTGDAKAQDHL-PVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTK 196
            T   +  D L P++   +   L  F L S  + ++V  +WY + R        I++GTK
Sbjct: 60  -TAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTK 118

Query: 197 FD------DFIQLPIDLQWTIA-SQARAYAKALNATLFF-SSATYNINVNKI 240
            D         +L       I   Q  A AK + A  +   SA     +  +
Sbjct: 119 LDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTV 170

>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 Length = 201

 Score = 56.5 bits (137), Expect = 6e-10
 Identities = 32/170 (18%), Positives = 76/170 (44%), Gaps = 10/170 (5%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           KI L+G+  +GKT  + ++       G     G++ M KT+ + G ++   IW+  G  +
Sbjct: 28  KIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQER 87

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFD--DFI 201
            +       + + A++  +D+T   + + +  W ++  +  +   I +++G K D  +  
Sbjct: 88  FRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERR 147

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
           ++          +A  +++A +     +SA  + NV K+   +  +L   
Sbjct: 148 EVSQQ-------RAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE 190

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 56.0 bits (136), Expect = 7e-10
 Identities = 35/167 (20%), Positives = 77/167 (46%), Gaps = 5/167 (2%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ ++GD  +GK+S L ++  +          G++   +T+ + G ++   IW+  G  
Sbjct: 10  FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQE 69

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           + +       + +  ++ ++D+TS  +  +V RW  +  +       I++G K DD  + 
Sbjct: 70  RFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDPERK 129

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
            ++ +      A  +A  +   LF +SA  N+NV ++   IT  +  
Sbjct: 130 VVETE-----DAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLR 171

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score = 56.1 bits (136), Expect = 8e-10
 Identities = 39/170 (22%), Positives = 73/170 (42%), Gaps = 6/170 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI ++G+  +GKTSFL +Y  D          G++   KT+     RI   IW+  G  
Sbjct: 9   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLE 68

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + ++  + M+D+T+  +  +V  W  Q +      A  +++G K D   +
Sbjct: 69  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE 128

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP 252
             +  +     + R  A  L    F +SA  NINV +  + +   + +  
Sbjct: 129 RVVSSE-----RGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKM 173

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score = 56.1 bits (136), Expect = 8e-10
 Identities = 33/170 (19%), Positives = 75/170 (44%), Gaps = 10/170 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  
Sbjct: 34  FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE 93

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + +  I+ ++D+T + +  +V +W Q+  +  ++    +++G K D   +
Sbjct: 94  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 153

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK----ILKFITAKL 248
             +D        A+ +A +L      +SA    NV +    +   I  ++
Sbjct: 154 KVVDYT-----TAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 198

>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} Length = 193

 Score = 56.1 bits (136), Expect = 9e-10
 Identities = 35/168 (20%), Positives = 73/168 (43%), Gaps = 6/168 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+G+  +GKT+ L ++  +E         G+    +T+++  A +   IW+  G  +
Sbjct: 27  KVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLER 86

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
            +       + ++  L +FDLT   T   V RW ++       T + +++G K D     
Sbjct: 87  YRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAR 146

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
            +  +     +AR +A+        +SA  + NV    + +  ++F  
Sbjct: 147 EVPTE-----EARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAK 189

>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 Length = 213

 Score = 56.2 bits (136), Expect = 9e-10
 Identities = 39/169 (23%), Positives = 80/169 (47%), Gaps = 7/169 (4%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +KI L+GD  +GK+  L ++V D+         G++   KT+ + G ++   +W+  G  
Sbjct: 21  MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQE 80

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + ++ I+ ++D+T   T  ++ +W++   +  N  A  +++G K D    
Sbjct: 81  RFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD---- 136

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             ++ +   A Q  A AK L      SSA  + NVN+I   +   + + 
Sbjct: 137 --METRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK 183

>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 Length = 178

 Score = 55.7 bits (135), Expect = 9e-10
 Identities = 31/164 (18%), Positives = 66/164 (40%), Gaps = 19/164 (11%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           L++ +LGD   GK+S + +++    +             K +LV G      I E  G  
Sbjct: 8   LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQ--YKKEMLVDGQTHLVLIREEAGAP 65

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ---ARKCNQTAIPIII---GTKF 197
            A+         + A++F+F L    + ++V R + Q    R   +  + + +     + 
Sbjct: 66  DAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRI 120

Query: 198 DDFIQLPIDLQWTIASQARAYAKALNATLFFSS-ATYNINVNKI 240
                  +       ++ARA    +    ++ + ATY +NV+++
Sbjct: 121 SASSPRVVG-----DARARALXADMKRCSYYETXATYGLNVDRV 159

>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* Length = 183

 Score = 55.3 bits (134), Expect = 1e-09
 Identities = 32/169 (18%), Positives = 68/169 (40%), Gaps = 6/169 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GKT  L ++  D          G++   +T+ + G RI   IW+  G  
Sbjct: 9   FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQE 68

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + ++ I+ ++D+T+  +  ++  W +   +  +     +I+G K D   +
Sbjct: 69  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 128

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             +  +     +    A         +SA  NINV      +   +   
Sbjct: 129 RQVSKE-----RGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAK 172

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 55.3 bits (134), Expect = 1e-09
 Identities = 33/168 (19%), Positives = 75/168 (44%), Gaps = 6/168 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+GD  +GK+  L ++  D   +      G++   +T+ + G  I   IW+  G  +
Sbjct: 18  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 77

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
            +       + +  I+ ++D+T + +  +V +W Q+  +  ++    +++G K D   + 
Sbjct: 78  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK 137

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
            +D        A+ +A +L      +SA    NV +    + A++   
Sbjct: 138 VVDYT-----TAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR 180

>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* Length = 206

 Score = 55.8 bits (135), Expect = 1e-09
 Identities = 32/170 (18%), Positives = 71/170 (41%), Gaps = 6/170 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+G+  +GK+  L ++  D          G++   KT+ + G  +   IW+  G  
Sbjct: 9   FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 68

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + S  I+ ++D+T + +   V  W Q+  +    T + +++G K D   +
Sbjct: 69  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 128

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP 252
             ++        A+ +A A       +SA  + NV      +  ++ +  
Sbjct: 129 RVVE-----YDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESM 173

>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* Length = 184

 Score = 54.7 bits (132), Expect = 2e-09
 Identities = 26/183 (14%), Positives = 70/183 (38%), Gaps = 21/183 (11%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPG--EGLNMMDKTLLVRGAR---ISYSIWE 138
           +K+ ++G+   GKT+ L++ +  +K   G      G+++ D  + +R  R   +  ++W+
Sbjct: 3   MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62

Query: 139 VTG----DAKAQDHLPVACKDSIAILFMFDLTSRCT-LKSVIRWYQQARKCNQTAIPIII 193
             G     +     +          L ++DL+     + ++  W    +    ++  I++
Sbjct: 63  FAGREEFYSTHPHFM----TQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVILV 118

Query: 194 GTKFDDFIQLPIDLQWTIASQARAYAKALN-----ATLFFSSATYNINVNKILKFITAKL 248
           GT  D   +     +  ++   +               F ++   +  + K+ K I  + 
Sbjct: 119 GTHLDVSDEK--QRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINES 176

Query: 249 FDI 251
            + 
Sbjct: 177 LNF 179

>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* Length = 170

 Score = 54.4 bits (132), Expect = 2e-09
 Identities = 43/178 (24%), Positives = 83/178 (46%), Gaps = 18/178 (10%)

Query: 78  ADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIW 137
              L  LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW
Sbjct: 1   GSALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIW 60

Query: 138 EVTGDAKAQDHL----PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPII 192
           +  G     +      P+  + S A + ++D+T   T  ++  W ++ R+    + +  I
Sbjct: 61  DTAG----LERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAI 116

Query: 193 IGTKFD--DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            G K D  D  ++           A+ YA +++A    +SA   IN+N++   I+ ++
Sbjct: 117 AGNKCDLTDVREVMER-------DAKDYADSIHAIFVETSAKNAININELFIEISRRI 167

>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* Length = 170

 Score = 54.1 bits (131), Expect = 3e-09
 Identities = 33/172 (19%), Positives = 78/172 (45%), Gaps = 6/172 (3%)

Query: 78  ADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIW 137
            + +   K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW
Sbjct: 1   GNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW 60

Query: 138 EVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTK 196
           +  G  +     P+  + + A + ++D+T+  +      W ++ ++  +   +  + G K
Sbjct: 61  DTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNK 120

Query: 197 FDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            D       + +     +A++YA   +     +SA  ++NVN+I   I  KL
Sbjct: 121 ADL-----ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>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* Length = 168

 Score = 53.7 bits (130), Expect = 4e-09
 Identities = 29/171 (16%), Positives = 74/171 (43%), Gaps = 13/171 (7%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +K+ ++G+  +GK+S +++Y      +      G++ +++ + V    +   +W+  G  
Sbjct: 6   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAG-- 63

Query: 144 KAQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD 199
             Q+    +  A  + + A + +F  T R + +++  W ++           ++  K D 
Sbjct: 64  --QEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDL 121

Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
                I  +     +A   AK L    + +S   ++NV+++ K++  K   
Sbjct: 122 LDDSCIKNE-----EAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 167

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score = 54.3 bits (131), Expect = 4e-09
 Identities = 32/168 (19%), Positives = 73/168 (43%), Gaps = 6/168 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           KI L+GD  +GK++ L ++  +E         G+    +TL + G RI   IW+  G  +
Sbjct: 15  KIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQER 74

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQL 203
            +       + ++  L ++D++   + ++   W  + R+  +      +IG K D     
Sbjct: 75  YRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLR 134

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
            +  +     +++ +A+        +SA  + NV+K  + +   ++  
Sbjct: 135 AVPTE-----ESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQK 177

>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* Length = 182

 Score = 53.7 bits (130), Expect = 5e-09
 Identities = 39/172 (22%), Positives = 74/172 (43%), Gaps = 11/172 (6%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARIS-YSIWEVTGD 142
           LK+ +LGD  +GKTS + +YV D+  Q      G + + K + V G +++   +W+  G 
Sbjct: 9   LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQ 68

Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQ----QARKCNQTAIPII-IGTKF 197
            + Q       + +   + ++D+T+  + +++  W       A   +    P + +G K 
Sbjct: 69  ERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKI 128

Query: 198 DDFIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
           D         +      A+  AK+L     F +SA   INV+   + I    
Sbjct: 129 D----AEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA 176

>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* Length = 179

 Score = 53.3 bits (129), Expect = 5e-09
 Identities = 35/167 (20%), Positives = 66/167 (39%), Gaps = 6/167 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++GD  +GK+  L ++   +         G+    + + V G +I   IW+  G  
Sbjct: 16  FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQE 75

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + +   L ++D+T R T   +  W   AR   N   + I+IG K D   Q
Sbjct: 76  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ 135

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
             +  +     +A+ +A+        +SA    NV         K++
Sbjct: 136 RDVTYE-----EAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIY 177

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score = 53.0 bits (128), Expect = 1e-08
 Identities = 32/169 (18%), Positives = 67/169 (39%), Gaps = 6/169 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++G    GK+  L +++ ++ +Q  +   G+    + + V G  +   IW+  G  
Sbjct: 26  FKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQE 85

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + +   L ++D+TSR T  S+  W   AR   +   + I+ G K D   +
Sbjct: 86  RFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPE 145

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             +        +A  +A+        +SA    NV +        + + 
Sbjct: 146 REVTFL-----EASRFAQENELMFLETSALTGENVEEAFLKCARTILNK 189

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score = 52.8 bits (127), Expect = 1e-08
 Identities = 48/206 (23%), Positives = 82/206 (39%), Gaps = 22/206 (10%)

Query: 55  LESGLVPGTTVRPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSP 114
             S  V   T                + ++K+ L+GD   GKTS L  +      +  +P
Sbjct: 6   HHSSGVDLGTENLYFQSMAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTP 65

Query: 115 GEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ---DHL-PVACKDSIAILFMFDLTSRCT 170
                 M   L V+G  +   IW+  G    Q   D L P+   D+  +L  FD+TS  +
Sbjct: 66  TVFERYM-VNLQVKGKPVHLHIWDTAG----QDDYDRLRPLFYPDASVLLLCFDVTSPNS 120

Query: 171 LKSVI-RWYQQARK-CNQTAIPIIIGTKFD------DFIQLPIDLQWTIA-SQARAYAKA 221
             ++  RWY +    C +  I I++G K D         +L  +    +   + +  A++
Sbjct: 121 FDNIFNRWYPEVNHFCKKVPI-IVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARS 179

Query: 222 LNATLFF-SSATYNINVNKILKFITA 246
           + A  +   SA  + NV+ +  F  A
Sbjct: 180 VGAVAYLECSARLHDNVHAV--FQEA 203

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 52.1 bits (126), Expect = 1e-08
 Identities = 28/161 (17%), Positives = 66/161 (40%), Gaps = 12/161 (7%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+G+  +GK++    + G + +         +  ++ ++V    ++  ++++     
Sbjct: 4   KVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGD 63

Query: 145 AQDHLPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPII-IGTKFD--D 199
           A   L   C +   A L +F +T R +   V     + R       +P+I +G K D   
Sbjct: 64  AGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLAR 123

Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI 240
             ++ ++       + R  A  L+     +SA  + N  ++
Sbjct: 124 SREVSLE-------EGRHLAGTLSCKHIETSAALHHNTREL 157

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score = 52.4 bits (126), Expect = 2e-08
 Identities = 48/204 (23%), Positives = 85/204 (41%), Gaps = 33/204 (16%)

Query: 68  SLCHSHRH----------LDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEG 117
           S  H H H          +D +  V  KI ++GD   GKT+ L  +  D   +   P   
Sbjct: 3   SSHHHHHHSSGLVPRGSHMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVP--- 59

Query: 118 LNMMDK---TLLVRGARISYSIWEVTGDAKAQDHL-PVACKDSIAILFMFDLTSRCTLKS 173
             + +    +  +   RI  S+W+ +G     D++ P++  DS A+L  FD++   TL S
Sbjct: 60  -TVFENYTASFEIDTQRIELSLWDTSGSPYY-DNVRPLSYPDSDAVLICFDISRPETLDS 117

Query: 174 VI-RWYQQARKCNQTAIPII-IGTKFD------DFIQLPIDLQWTIA-SQARAYAKALNA 224
           V+ +W  + ++       ++ +G K D        ++L    Q  ++  Q    AK + A
Sbjct: 118 VLKKWKGEIQEFCPNT-KMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGA 176

Query: 225 TLFF--SSATYNINVNKILKFITA 246
             +   S+     +V  I  F  A
Sbjct: 177 ATYIECSALQSENSVRDI--FHVA 198

>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} Length = 195

 Score = 52.2 bits (126), Expect = 2e-08
 Identities = 32/184 (17%), Positives = 70/184 (38%), Gaps = 21/184 (11%)

Query: 71  HSHRH---------LDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMM 121
           H H H                  K+ L+G+  +GK++    + G + +    P    +  
Sbjct: 2   HHHHHHSSGRENLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTY 61

Query: 122 DKTLLVRGARISYSIWEVTGDAKAQDHLPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQ 180
           ++ ++V    ++  ++++     A   L   C +   A L +F +T R +   V     +
Sbjct: 62  ERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLR 121

Query: 181 ARKCNQTA-IPIII-GTKFD--DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNIN 236
            R       +P+I+ G K D     ++ ++       + R  A  L+     +SA  + N
Sbjct: 122 LRAGRPHHDLPVILVGNKSDLARSREVSLE-------EGRHLAGTLSCKHIETSAALHHN 174

Query: 237 VNKI 240
             ++
Sbjct: 175 TREL 178

>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 Length = 180

 Score = 52.2 bits (126), Expect = 2e-08
 Identities = 33/174 (18%), Positives = 70/174 (40%), Gaps = 11/174 (6%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDE-KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           K+ L+GD  +GKT  L ++              G++  +K L V G ++   +W+  G  
Sbjct: 12  KVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQE 71

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       +D+ A+L ++D+T++ +  ++  W  +  +        +++G K D   +
Sbjct: 72  RFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHE 131

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK----ILKFITAKLFDIP 252
             +             AK        +SA   +NV+     I K +  +    P
Sbjct: 132 RVVK-----REDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKAP 180

>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 Length = 207

 Score = 52.4 bits (126), Expect = 2e-08
 Identities = 42/187 (22%), Positives = 80/187 (42%), Gaps = 22/187 (11%)

Query: 74  RHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDK---TLLVRGA 130
            +L   +++  K+ ++GD   GKT  L  +  DE  +   P     + +     + V G 
Sbjct: 16  ENLYFQSMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVP----TVFENYVADIEVDGK 71

Query: 131 RISYSIWEVTGDAKAQDHL-PVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARK-CNQT 187
           ++  ++W+  G  +  D L P++  D+  IL  F + S  +L+++  +W  + +  C   
Sbjct: 72  QVELALWDTAGQ-EDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNV 130

Query: 188 AIPIIIGTKFD------DFIQLPIDLQWTIAS-QARAYAKALNATLFF-SSATYNINVNK 239
            I I++  K D         +L    Q  + +   RA A  + A  +   SA     V +
Sbjct: 131 PI-ILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVRE 189

Query: 240 ILKFITA 246
           +  F TA
Sbjct: 190 V--FETA 194

>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* Length = 189

 Score = 51.4 bits (124), Expect = 3e-08
 Identities = 41/178 (23%), Positives = 79/178 (44%), Gaps = 23/178 (12%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI ++GD ++GKT    ++             G++  ++ + + G RI   +W+  G  
Sbjct: 21  FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAG-- 78

Query: 144 KAQD--HLPVAC---KDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPII-IGTK 196
             Q+     +     ++  A++F++D+T+  +  S+  W ++ ++      IP I +G K
Sbjct: 79  --QERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNK 136

Query: 197 FD--DFIQLPIDLQWTIASQARAYAKALNATLFFSSA---TYNINVNKILKFITAKLF 249
            D    IQ+P D        A+ +A   +  LF +SA     N +V  I   +  KL 
Sbjct: 137 CDLRSAIQVPTD-------LAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLK 187

>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 Length = 182

 Score = 51.6 bits (124), Expect = 3e-08
 Identities = 37/179 (20%), Positives = 68/179 (37%), Gaps = 26/179 (14%)

Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMD---KTLLVRGARISYSIWEV 139
            +K   +GD  +GKT  L  Y  +       P     + D     ++V GA ++  +W+ 
Sbjct: 8   FIKCVTVGDGAVGKTCLLISYTSNTFPTDYVP----TVFDNFSANVVVNGATVNLGLWDT 63

Query: 140 TGDAKAQ---DHL-PVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARK-CNQTAIPIII 193
            G    Q   + L P++ + +   +  F L S+ + ++V  +W  + +       I +++
Sbjct: 64  AG----QEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPI-VLV 118

Query: 194 GTKFD-----DFIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITA 246
           GTK D      F             Q     K + A  +   S+    NV  +  F  A
Sbjct: 119 GTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGV--FDAA 175

>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* Length = 191

 Score = 51.4 bits (124), Expect = 3e-08
 Identities = 30/169 (17%), Positives = 67/169 (39%), Gaps = 6/169 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++GD  +GK+  L ++     +       G+    + + + G +I   IW+  G  
Sbjct: 22  FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQE 81

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
             +       + +   L ++D+T R T   +  W + AR+  +   + ++IG K D   +
Sbjct: 82  SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR 141

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             +  +     +  A+A+        +SA    NV +       +++  
Sbjct: 142 RDVKRE-----EGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRK 185

>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* Length = 207

 Score = 51.5 bits (124), Expect = 4e-08
 Identities = 44/188 (23%), Positives = 81/188 (43%), Gaps = 12/188 (6%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ +LGD  +GKTS + +YV  +         G + + K ++V    ++  IW+  G  
Sbjct: 9   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQE 68

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQ----QARKCNQTAIPII-IGTKFD 198
           + Q       + +   + +FD+T+  T K++  W      QA   +    P + +G K D
Sbjct: 69  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKID 128

Query: 199 DFIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKLFDIPWTLER 257
                 ++ +     +A+A+  + N   +F +SA   INV +  + I          +E 
Sbjct: 129 ------LENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVEL 182

Query: 258 NLTIGEPI 265
                EPI
Sbjct: 183 YNEFPEPI 190

>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* Length = 181

 Score = 51.0 bits (123), Expect = 4e-08
 Identities = 40/170 (23%), Positives = 76/170 (44%), Gaps = 10/170 (5%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ LLGD   GK+S + ++V D+  +      G     +TL V  A + + IW+  G  +
Sbjct: 14  KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQER 73

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFD--DFI 201
                P+  + + A + +FD+T++ + +   +W Q+ +   N   +  + G K D  D  
Sbjct: 74  YHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR 133

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
           ++  +        A+ YA+        +SA    NV +I   I  +L  +
Sbjct: 134 KVTAE-------DAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRV 176

>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* Length = 184

 Score = 50.9 bits (122), Expect = 4e-08
 Identities = 38/166 (22%), Positives = 70/166 (42%), Gaps = 18/166 (10%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDK---TLLVRGARISYSIWEVT 140
            KI ++GD   GKT+ L  +  D   +   P     + +    +  +   RI  S+W+ +
Sbjct: 8   CKIVVVGDSQCGKTALLHVFAKDCFPENYVP----TVFENYTASFEIDTQRIELSLWDTS 63

Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPII-IGTKFD 198
           G     +  P++  DS A+L  FD++   TL SV+ +W  + ++       ++ +G K D
Sbjct: 64  GSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPN-TKMLLVGCKSD 122

Query: 199 --DFIQLPIDLQWT-----IASQARAYAKALNATLFF-SSATYNIN 236
               +   ++L           Q    AK + A  +   SA  + N
Sbjct: 123 LRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 168

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score = 50.6 bits (122), Expect = 5e-08
 Identities = 32/176 (18%), Positives = 71/176 (40%), Gaps = 14/176 (7%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRG-ARISYSIWEVTGD 142
           LKI +LGD   GKTS    +  +   +      GL+   + + + G   ++  IW++ G 
Sbjct: 7   LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ 66

Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP----IIIGTKFD 198
                 L      +  +L ++D+T+  + +++  WY   +K ++ +       ++G K D
Sbjct: 67  TIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKID 126

Query: 199 --DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP 252
                 +  +       +   + +    +  F SA    +V    + + A++  I 
Sbjct: 127 LEHMRTIKPE-------KHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIK 175

>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* Length = 186

 Score = 50.6 bits (122), Expect = 6e-08
 Identities = 33/169 (19%), Positives = 67/169 (39%), Gaps = 6/169 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++G+   GK+  L +++  + +   +   G+    K + V G  +   IW+  G  
Sbjct: 11  FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQE 70

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK-CNQTAIPIIIGTKFDDFIQ 202
           + +       + +   L ++D+TSR T  ++  W   AR   +Q  + I+ G K D    
Sbjct: 71  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD 130

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
             +        +A  +A+        +SA    NV +       K+ + 
Sbjct: 131 REVTFL-----EASRFAQENELMFLETSALTGENVEEAFVQCARKILNK 174

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 51.0 bits (122), Expect = 6e-08
 Identities = 28/207 (13%), Positives = 61/207 (29%), Gaps = 48/207 (23%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  LLG+  +GK+S + +   D   +  +   G +     + +    I  +      + 
Sbjct: 8   YKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNN 67

Query: 144 KAQDHLPVAC-------------------------------------KDSIAILFMFDLT 166
               +                                          + +   + +FD++
Sbjct: 68  INSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDIS 127

Query: 167 SRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIAS--QARAYAKALNA 224
           +  TL     W  Q +  +   I I++  K        ID         + + YA+  N 
Sbjct: 128 NSNTLDRAKTWVNQLKISSNYII-ILVANK--------IDKNKFQVDILEVQKYAQDNNL 178

Query: 225 TLFFSSATYNINVNKILKFITAKLFDI 251
               +SA    N+  I   +  +++  
Sbjct: 179 LFIQTSAKTGTNIKNIFYMLAEEIYKN 205

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 50.5 bits (121), Expect = 6e-08
 Identities = 38/173 (21%), Positives = 68/173 (39%), Gaps = 22/173 (12%)

Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMM----DKTLLVRGARISYSIWE 138
            +K  L+GD  +GKTS +  Y        G P E +          + V G  +   + +
Sbjct: 20  GVKCVLVGDGAVGKTSLVVSYT-----TNGYPTEYIPTAFDNFSAVVSVDGRPVRLQLCD 74

Query: 139 VTGDAKAQDHL-PVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPII-IGT 195
            T      D L P+   ++   L  F + S  + ++V  +W  + R       PII +GT
Sbjct: 75  -TAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPK-APIILVGT 132

Query: 196 KFD------DFIQLPIDLQWTIAS-QARAYAKALNATLFF-SSATYNINVNKI 240
           + D        I+L    +  +    A+  A+ + A  +   SA    N+ ++
Sbjct: 133 QSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEV 185

>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* Length = 167

 Score = 49.8 bits (120), Expect = 7e-08
 Identities = 30/175 (17%), Positives = 64/175 (36%), Gaps = 42/175 (24%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           K+ +LG   +GK++         F+EKY   + D                K + V  +  
Sbjct: 5   KVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYR-------------KEIEVDSSPS 51

Query: 133 SYSIWEVTGDAKAQDHLPV----ACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQT 187
              I +  G     +          K+    + ++ L ++ + + +     Q  R     
Sbjct: 52  VLEILDTAG----TEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYE 107

Query: 188 AIPIII-GTKFDDFIQLPIDLQWTI-ASQARAYAKALNATLFFSSATYNINVNKI 240
            +P+I+ G K D      ++ +  + +S+ RA A+        +SA     V+++
Sbjct: 108 KVPVILVGNKVD------LESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDEL 156

>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* Length = 177

 Score = 49.8 bits (120), Expect = 9e-08
 Identities = 38/179 (21%), Positives = 72/179 (40%), Gaps = 24/179 (13%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLGD  +GK+S + +YV ++ +       G+  ++K L V G  ++  IW+  G  
Sbjct: 8   FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAG-- 65

Query: 144 KAQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVIRW----YQQARKCNQTAIPII-IG 194
             Q+    L     + S   L  F +    + +++  W       A      + P + +G
Sbjct: 66  --QERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILG 123

Query: 195 TKFDDFIQLPIDLQWTIAS--QARAYAKALNATLFF-SSATYNINVNKILKFITAKLFD 250
            K        ID+     S  +A+A+ +      +F +SA    NV    +    ++  
Sbjct: 124 NK--------IDISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA 174

>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* ... Length = 201

 Score = 50.1 bits (120), Expect = 1e-07
 Identities = 38/168 (22%), Positives = 73/168 (43%), Gaps = 14/168 (8%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ ++GD   GKT  L  +  D+  +   P    N +   + V G ++  ++W+  G  
Sbjct: 26  KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQ- 83

Query: 144 KAQDHL-PVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARK-CNQTAIPIIIGTKFD-- 198
           +  D L P++  D+  IL  F + S  +L+++  +W  + +  C    I I++G K D  
Sbjct: 84  EDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI-ILVGNKKDLR 142

Query: 199 ----DFIQLPIDLQWTIA-SQARAYAKALNATLFFS-SATYNINVNKI 240
                  +L    Q  +   + R  A  ++A  +   SA     V ++
Sbjct: 143 QDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREV 190

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score = 49.7 bits (119), Expect = 1e-07
 Identities = 41/178 (23%), Positives = 72/178 (40%), Gaps = 26/178 (14%)

Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL-NMMD---KTLLVRGARISYSIWE 138
            +K   +GD  +GKT  L  Y          P + +  + D     + V G  ++  +W+
Sbjct: 9   FIKCVTVGDGAVGKTCMLICYT-----SNKFPTDYIPTVFDNFSANVAVDGQIVNLGLWD 63

Query: 139 VTGDAKAQ---DHL-PVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARK-CNQTAIPII 192
             G    Q     L P++ + +   +  F L S+ + ++V+ +W  + R+      I ++
Sbjct: 64  TAG----QEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPI-VL 118

Query: 193 IGTKFD--DFIQLPIDLQWTIAS-QARAYAKALNATLFF-SSATYNINVNKILKFITA 246
           +GTK D  D      D    I S Q     K + A  +   S+    NV  +  F TA
Sbjct: 119 VGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAV--FDTA 174

>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* Length = 217

 Score = 49.6 bits (119), Expect = 2e-07
 Identities = 41/184 (22%), Positives = 72/184 (39%), Gaps = 25/184 (13%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +K+  LGD  +GKT+FL +Y  ++         G++  +K ++    +            
Sbjct: 26  IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNA-QGPNGSSGKAFKV 84

Query: 144 KAQ--DHLPVAC------------KDSIAILFMFDLTSRCTLKSVIRWYQQARK--CNQT 187
             Q  D    A             +D++  L MFDLTS+ +  +V  W  Q +     + 
Sbjct: 85  HLQLWD---TAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCEN 141

Query: 188 AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAK 247
              ++IG K D   Q  ++ +     QAR  A       F +SA    NV K ++ +   
Sbjct: 142 PDIVLIGNKADLPDQREVNER-----QARELADKYGIPYFETSAATGQNVEKAVETLLDL 196

Query: 248 LFDI 251
           +   
Sbjct: 197 IMKR 200

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score = 48.3 bits (116), Expect = 3e-07
 Identities = 33/174 (18%), Positives = 65/174 (37%), Gaps = 40/174 (22%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           KI++LG   +GK+S         F++ Y   + +                K + V G   
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-------------KLITVNGQEY 54

Query: 133 SYSIWEVTGDAKAQDHLPV----ACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQT 187
              + +  G    QD   +       D    + ++ +TS  + + +   + +      + 
Sbjct: 55  HLQLVDTAG----QDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKV 110

Query: 188 AIPIII-GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI 240
            IPI++ G K D    L ++   +   + +A A++ NA    SSA  N     +
Sbjct: 111 QIPIMLVGNKKD----LHMERVIS-YEEGKALAESWNAAFLESSAKENQTAVDV 159

>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* Length = 181

 Score = 48.3 bits (116), Expect = 3e-07
 Identities = 33/174 (18%), Positives = 62/174 (35%), Gaps = 40/174 (22%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           K+ ++G   +GK++         F+  Y   + D                K   V G   
Sbjct: 11  KLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-------------KICSVDGIPA 57

Query: 133 SYSIWEVTGDAKAQDHLPVA----CKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQT 187
              I +  G    Q+          +     L +F +  R +   V + + Q  R  ++ 
Sbjct: 58  RLDILDTAG----QEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRD 113

Query: 188 AIPIII-GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI 240
             P+++ G K D    L    Q    S+A A+  + +   F +SA   +NV++ 
Sbjct: 114 DFPVVLVGNKAD----LESQRQVP-RSEASAFGASHHVAYFEASAKLRLNVDEA 162

>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} Length = 175

 Score = 48.3 bits (116), Expect = 3e-07
 Identities = 37/165 (22%), Positives = 71/165 (43%), Gaps = 20/165 (12%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSP-GEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           ++ LLGD  +GKTS    + G ++       GE  ++ ++TL V G   +  + +     
Sbjct: 6   RVVLLGDPGVGKTSLASLFAGKQERDLHEQLGE--DVYERTLTVDGEDTTLVVVDTWE-- 61

Query: 144 KAQDHLPVAC------KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIII-GT 195
              + L  +       +   A + ++ +  R + +S      Q R+ +Q   +PII+ G 
Sbjct: 62  --AEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGN 119

Query: 196 KFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI 240
           K D    L    + ++  + RA A   +     +SAT   NV ++
Sbjct: 120 KAD----LARCREVSV-EEGRACAVVFDCKFIETSATLQHNVAEL 159

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score = 48.6 bits (116), Expect = 3e-07
 Identities = 35/181 (19%), Positives = 69/181 (38%), Gaps = 22/181 (12%)

Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMM----DKTLLVRGARISYS 135
             + LK  ++GD  +GKT  L  Y          P E +  +      ++ V G +    
Sbjct: 15  GALMLKCVVVGDGAVGKTCLLMSYA-----NDAFPEEYVPTVFDHYAVSVTVGGKQYLLG 69

Query: 136 IWEVTGDAKAQDHL-PVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIII 193
           +++ T   +  D L P++   +   L  F + +  + ++V   W  + ++       ++I
Sbjct: 70  LYD-TAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLI 128

Query: 194 GTKFD------DFIQLPIDLQWTIA-SQARAYAKALNATLFFS-SATYNINVNKILKFIT 245
           GT+ D         +L    +  I   Q +  AK + A  +   SA     +  +  F  
Sbjct: 129 GTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTV--FDE 186

Query: 246 A 246
           A
Sbjct: 187 A 187

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score = 47.9 bits (115), Expect = 4e-07
 Identities = 36/175 (20%), Positives = 68/175 (38%), Gaps = 41/175 (23%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           ++++ G   +GK+S         F E Y   V D                + +    +  
Sbjct: 5   RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVED-------------TYRQVISCDKSIC 51

Query: 133 SYSIWEVTGDAKAQDHLPV----ACKDSIAILFMFDLTSRCTLKSVIRWYQQAR--KCNQ 186
           +  I + TG        P     +     A + ++ +TSR +L+ +   Y+Q    K + 
Sbjct: 52  TLQITDTTG----SHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDV 107

Query: 187 TAIPIII-GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI 240
            +IPI++ G K D+     +      +S+A A A+        +SA  N NV ++
Sbjct: 108 ESIPIMLVGNKCDESPSREVQ-----SSEAEALARTWKCAFMETSAKLNHNVKEL 157

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score = 47.9 bits (115), Expect = 5e-07
 Identities = 34/187 (18%), Positives = 69/187 (36%), Gaps = 43/187 (22%)

Query: 78  ADNLVALKISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTL 125
           ++NL   K+ ++GD  +GK++         F++ Y   + D                K  
Sbjct: 13  SENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSYL-------------KHT 59

Query: 126 LVRGARISYSIWEVTGDAKAQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQ- 180
            +        + +  G    Q+    +     +     L ++ +T + + + V R++Q  
Sbjct: 60  EIDNQWAILDVLDTAG----QEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLI 115

Query: 181 ARKCNQTAIPIII-GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSA-TYNINVN 238
            R  ++ + P+I+   K D    L    + T   Q +  A   N     +SA    +NV+
Sbjct: 116 LRVKDRESFPMILVANKVD----LMHLRKVT-RDQGKEMATKYNIPYIETSAKDPPLNVD 170

Query: 239 KILKFIT 245
           K   F  
Sbjct: 171 KT--FHD 175

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score = 47.5 bits (114), Expect = 5e-07
 Identities = 36/162 (22%), Positives = 67/162 (41%), Gaps = 17/162 (10%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ LLG   +GK++    + G E           +  D++++V G   S  ++++     
Sbjct: 4   KVLLLGAPGVGKSALARIFGGVEDGPEAEAAG--HTYDRSIVVDGEEASLMVYDIWE--- 58

Query: 145 AQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIII-GTKFD 198
            QD    LP  C     A + ++ +T + + +       Q R+  QT  +PII+ G K D
Sbjct: 59  -QDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSD 117

Query: 199 DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI 240
                 + +      + RA A   +     +SA  + NV  +
Sbjct: 118 LVRSREVSVD-----EGRACAVVFDCKFIETSAALHHNVQAL 154

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score = 47.6 bits (114), Expect = 6e-07
 Identities = 30/181 (16%), Positives = 66/181 (36%), Gaps = 47/181 (25%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           K+ ++G   +GK++         F+++Y   + D                K +++ G   
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-------------KQVVIDGETC 52

Query: 133 SYSIWEVTGDAKAQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQT 187
              I +  G    Q+    +     +     L +F + +  + + +  + +Q  R  +  
Sbjct: 53  LLDILDTAG----QEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSE 108

Query: 188 AIPIII-GTKFDDFIQLPIDL-QWTI-ASQARAYAKALNATLFFSSATYNINVNKILKFI 244
            +P+++ G K         DL   T+   QA+  A++       +SA     V+    F 
Sbjct: 109 DVPMVLVGNK--------CDLPSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDA--FY 158

Query: 245 T 245
           T
Sbjct: 159 T 159

>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* Length = 190

 Score = 47.6 bits (114), Expect = 7e-07
 Identities = 35/202 (17%), Positives = 68/202 (33%), Gaps = 54/202 (26%)

Query: 71  HSHRH-------LDADNLVALKISLLGDCHIGKTS---------FLEKY---VGDEKEQG 111
           H H H       L    +   K+ ++G   +GK++         F+++Y   + D     
Sbjct: 2   HHHHHHSSGRENLYFQGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-- 59

Query: 112 GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH---LPVAC-KDSIAILFMFDLTS 167
                      K +++ G      I +  G    Q+    +     +     L +F + +
Sbjct: 60  -----------KQVVIDGETCLLDILDTAG----QEEYSAMRDQYMRTGEGFLCVFAINN 104

Query: 168 RCTLKSVIRWYQQ-ARKCNQTAIPIII-GTKFDDFIQLPIDL-QWTI-ASQARAYAKALN 223
             +   +  + +Q  R  +   +P+++ G K         DL   T+   QA   AK+  
Sbjct: 105 SKSFADINLYREQIKRVKDSDDVPMVLVGNK--------CDLPTRTVDTKQAHELAKSYG 156

Query: 224 ATLFFSSATYNINVNKILKFIT 245
                +SA     V     F T
Sbjct: 157 IPFIETSAKTRQGVEDA--FYT 176

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 46.9 bits (112), Expect = 1e-06
 Identities = 25/201 (12%), Positives = 66/201 (32%), Gaps = 25/201 (12%)

Query: 66  RPSLCHSHRHLDADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE------GLN 119
              +    + +D    +  K++++G+  +GK++ +  +      +G    +      G+ 
Sbjct: 3   ASMVKKEVKPIDITATLRCKVAVVGEATVGKSALISMFT----SKGSKFLKDYAMTSGVE 58

Query: 120 MMDKTLLVRGARISYSIWEVTGDAKAQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVI 175
           ++   + +    +S  ++    D    D                + +FD++S  + +S  
Sbjct: 59  VVVAPVTIPDTTVSVELF--LLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCK 116

Query: 176 RWYQQARKCNQTAIP----IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSA 231
            W++  +            +++  K D    LP          A+ +A       F  SA
Sbjct: 117 AWFELLKSARPDRERPLRAVLVANKTD----LPPQRHQVRLDMAQDWATTNTLDFFDVSA 172

Query: 232 TY-NINVNKILKFITAKLFDI 251
                + +     I    +  
Sbjct: 173 NPPGKDADAPFLSIATTFYRN 193

>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* ... Length = 166

 Score = 45.9 bits (110), Expect = 2e-06
 Identities = 27/176 (15%), Positives = 64/176 (36%), Gaps = 45/176 (25%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           K+ ++G   +GK++         F+++    + D                K +++ G   
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYR-------------KQVVIDGETC 51

Query: 133 SYSIWEVTGDAKAQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQT 187
              I +  G    Q+    +     +     L +F + +  + + + ++ +Q  R  +  
Sbjct: 52  LLDILDTAG----QEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSD 107

Query: 188 AIPIII-GTKFDDFIQLPIDL-QWTI-ASQARAYAKALNATLFFSSATYNINVNKI 240
            +P+++ G K         DL   T+ + QA+  A++       +SA     V   
Sbjct: 108 DVPMVLVGNK--------SDLAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDA 155

>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* Length = 195

 Score = 46.1 bits (110), Expect = 2e-06
 Identities = 40/183 (21%), Positives = 74/183 (40%), Gaps = 25/183 (13%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV----------RGARISY 134
           K   LGD  +GKTS L +Y   +         G++  +K ++           RG RI  
Sbjct: 13  KFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHL 72

Query: 135 SIWEVTGDAKAQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQARK--CNQTA 188
            +W+  G     +    L  A  +D++  L +FDLT+  +  +V  W  Q +    ++  
Sbjct: 73  QLWDTAG----LERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENP 128

Query: 189 IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             ++ G K D   Q  +  +     +AR  A+      F +SA    N++  ++ +   +
Sbjct: 129 DIVLCGNKSDLEDQRAVKEE-----EARELAEKYGIPYFETSAANGTNISHAIEMLLDLI 183

Query: 249 FDI 251
              
Sbjct: 184 MKR 186

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 46.4 bits (111), Expect = 2e-06
 Identities = 33/175 (18%), Positives = 62/175 (35%), Gaps = 42/175 (24%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           K+ +LG   +GKTS         F E Y   V +                K + +     
Sbjct: 26  KVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYS-------------KIVTLGKDEF 72

Query: 133 SYSIWEVTGDAKAQDHLPV----ACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQT 187
              + +  G    QD   +            + ++ +TS  + + +   YQ+      +T
Sbjct: 73  HLHLVDTAG----QDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKT 128

Query: 188 AIPIII-GTKFDDFIQLPIDLQWTI-ASQARAYAKALNATLFFSSATYNINVNKI 240
            +P+++ G K D      +  +  + A + +  A++  AT   SSA  N     I
Sbjct: 129 RVPVVLVGNKAD------LSPEREVQAVEGKKLAESWGATFMESSARENQLTQGI 177

>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 = 47.2 bits (111), Expect = 3e-06
 Identities = 49/276 (17%), Positives = 89/276 (32%), Gaps = 81/276 (29%)

Query: 37  IRYRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSH--RHLDADNLV-ALKISL----- 88
            R + LPR  +T+ +P  L   ++   ++R  L      +H++ D L   ++ SL     
Sbjct: 313 CRPQDLPREVLTT-NPRRL--SII-AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP 368

Query: 89  ---------LG----DCHIGKTSFLEKYVGDEKEQGGSPGEGLN-MMDKTLLVR-GARIS 133
                    L       HI  T  L     D  +        +N +   +L+ +     +
Sbjct: 369 AEYRKMFDRLSVFPPSAHI-PTILLSLIWFDVIKS--DVMVVVNKLHKYSLVEKQPKEST 425

Query: 134 YSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTL-KSVIRWYQQARK-CNQTAIPI 191
            SI                   SI +     L +   L +S++  Y   +   +   IP 
Sbjct: 426 ISI-----------P-------SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPP 467

Query: 192 I--------IG---------TKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN 234
                    IG          +   F  + +D ++ +  + R  + A NA    S +  N
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF-LEQKIRHDSTAWNA----SGSILN 522

Query: 235 --INVNKILKFITAKLFDIPWTLERNLTIGEPIIDF 268
               +     +I     D     ER +     I+DF
Sbjct: 523 TLQQLKFYKPYIC----DNDPKYERLV---NAILDF 551

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score = 45.7 bits (109), Expect = 4e-06
 Identities = 32/174 (18%), Positives = 63/174 (36%), Gaps = 40/174 (22%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           K+ ++G   +GK++         F+E Y     D                K +++ G  +
Sbjct: 16  KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADS-------------YRKKVVLDGEEV 62

Query: 133 SYSIWEVTGDAKAQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQT 187
              I +  G    Q+    +     +     L +F +T   +  +   + +Q  R     
Sbjct: 63  QIDILDTAG----QEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDE 118

Query: 188 AIPIII-GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI 240
            +P ++ G K D    L    Q +   +A+  A+  N     +SA    NV+K+
Sbjct: 119 NVPFLLVGNKSD----LEDKRQVS-VEEAKNRAEQWNVNYVETSAKTRANVDKV 167

>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* Length = 187

 Score = 45.2 bits (108), Expect = 4e-06
 Identities = 33/179 (18%), Positives = 65/179 (36%), Gaps = 42/179 (23%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           K+ ++G   +GK++         F+E Y     D                K +++ G  +
Sbjct: 20  KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADS-------------YRKKVVLDGEEV 66

Query: 133 SYSIWEVTGDAKAQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQT 187
              I +  G    Q+    +     +     L +F +T   +  +   + +Q  R     
Sbjct: 67  QIDILDTAG----QEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDE 122

Query: 188 AIPIII-GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFIT 245
            +P ++ G K D    L    Q ++  +A+  A+  N     +SA    NV+K+  F  
Sbjct: 123 NVPFLLVGNKSD----LEDKRQVSVE-EAKNRAEQWNVNYVETSAKTRANVDKV--FFD 174

>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 Length = 199

 Score = 45.3 bits (108), Expect = 5e-06
 Identities = 32/177 (18%), Positives = 64/177 (36%), Gaps = 46/177 (25%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           ++ + G   +GK+S         F + Y   + D                + +    +  
Sbjct: 10  RVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-------------QVISCDKSVC 56

Query: 133 SYSIWEVTGDAKAQDHLPV----ACKDSIAILFMFDLTSRCTLKSVIRWYQQAR--KCNQ 186
           +  I + TG        P     +     A + +F +TS+ +L+ +   Y+     K + 
Sbjct: 57  TLQITDTTG----SHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSV 112

Query: 187 TAIPIII-GTKFDDFIQLPIDL-QWTI-ASQARAYAKALNATLFFSSATYNINVNKI 240
             IP+++ G K         D  Q  +   +A+A A+        +SA  N NV ++
Sbjct: 113 EDIPVMLVGNK--------CDETQREVDTREAQAVAQEWKCAFMETSAKMNYNVKEL 161

>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} Length = 187

 Score = 44.9 bits (107), Expect = 5e-06
 Identities = 29/176 (16%), Positives = 56/176 (31%), Gaps = 42/176 (23%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
            +++LG    GK++         F+ +Y   + D                    V    +
Sbjct: 23  NLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYS-------------SEETVDHQPV 69

Query: 133 SYSIWEVTGDAKAQDH---LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR---KCNQ 186
              + +        D           + A L ++ + SR +  S   + +      K  Q
Sbjct: 70  HLRVMDTAD----LDTPRNCERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQ 125

Query: 187 TAIPIII-GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNI-NVNKI 240
            +IP ++ G K D    +    Q T  ++  A A       F  SA  +  +V  +
Sbjct: 126 RSIPALLLGNKLD----MAQYRQVT-KAEGVALAGRFGCLFFEVSACLDFEHVQHV 176

>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* Length = 168

 Score = 44.4 bits (106), Expect = 6e-06
 Identities = 33/179 (18%), Positives = 64/179 (35%), Gaps = 42/179 (23%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           K+ ++G   +GK++         F+E Y     D                K +++ G  +
Sbjct: 6   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-------------KKVVLDGEEV 52

Query: 133 SYSIWEVTGDAKAQDH---LPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQT 187
              I +  G    Q+    +     +     L +F +T   +  +   + +Q  R     
Sbjct: 53  QIDILDTAG----QEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDE 108

Query: 188 AIPIII-GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFIT 245
            +P ++ G K D    L    Q ++  +A+  A   N     +SA    NV+K+  F  
Sbjct: 109 NVPFLLVGNKSD----LEDKRQVSVE-EAKNRADQWNVNYVETSAKTRANVDKV--FFD 160

>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* Length = 192

 Score = 44.6 bits (106), Expect = 6e-06
 Identities = 36/161 (22%), Positives = 69/161 (42%), Gaps = 11/161 (6%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEK--EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
           ++ L+G+  +GK++    + G     +       G +  ++TL+V G   +  + ++  +
Sbjct: 8   RVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVL-GEDTYERTLMVDGESATIILLDMWEN 66

Query: 143 AKAQDHLPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPII-IGTKFDD 199
               + L   C +   A L ++ +T R + +       Q R+  QT  IPII +G K D 
Sbjct: 67  KGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSD- 125

Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI 240
              L    +    S+ RA A   +     +SA    NV ++
Sbjct: 126 ---LV-RXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKEL 162

>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* Length = 167

 Score = 44.0 bits (105), Expect = 7e-06
 Identities = 36/181 (19%), Positives = 66/181 (36%), Gaps = 45/181 (24%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           K+ +LG   +GK++         F+EKY   + D                K + V   + 
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDS-------------YRKQVEVDCQQC 51

Query: 133 SYSIWEVTGDAKAQDHLPV----ACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQT 187
              I +  G     +          K+      ++ +T++ T   +    +Q  R  +  
Sbjct: 52  MLEILDTAG----TEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTE 107

Query: 188 AIPIII-GTKFDDFIQLPIDLQWTI-ASQARAYAKALNATLFF-SSATYNINVNKILKFI 244
            +P+I+ G K D      ++ +  +   Q +  A+      F  SSA   INVN+I  F 
Sbjct: 108 DVPMILVGNKCD------LEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEI--FY 159

Query: 245 T 245
            
Sbjct: 160 D 160

>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 Length = 211

 Score = 43.5 bits (103), Expect = 2e-05
 Identities = 35/164 (21%), Positives = 69/164 (42%), Gaps = 17/164 (10%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSP---GEGLNMMDKTLLVRGARISYSIWEVTG 141
           ++ L+G+  +GK++    + G            GE  +  ++TL+V G   +  + ++  
Sbjct: 39  RVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGE--DTYERTLMVDGESATIILLDMWE 96

Query: 142 DAKAQDHLPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIII-GTKFD 198
           +    + L   C +   A L ++ +T R + +       Q R+  QT  IPII+ G K D
Sbjct: 97  NKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSD 156

Query: 199 --DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI 240
                ++ +        + RA A   +     +SA    NV ++
Sbjct: 157 LVRCREVSVS-------EGRACAVVFDCKFIETSAAVQHNVKEL 193

>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 Length = 196

 Score = 43.0 bits (102), Expect = 3e-05
 Identities = 27/174 (15%), Positives = 56/174 (32%), Gaps = 40/174 (22%)

Query: 85  KISLLGDCHIGKTS---------FLEKY---VGDEKEQGGSPGEGLNMMDKTLLVRGARI 132
           K+++ G   +GK++         F+ +Y   +                      +    +
Sbjct: 30  KLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-------------HQATIDDEVV 76

Query: 133 SYSIWEVTGDAKAQD--HLPVAC-KDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTA 188
           S  I +  G    Q+         +     + ++D+T R + + V+              
Sbjct: 77  SMEILDTAG----QEDTIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKN 132

Query: 189 IPIII-GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSA-TYNINVNKI 240
           + +I+ G K D    L    Q +   +    A  L    +  SA T   N+ +I
Sbjct: 133 VTLILVGNKAD----LDHSRQVS-TEEGEKLATELACAFYECSACTGEGNITEI 181

>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* Length = 332

 Score = 41.9 bits (98), Expect = 1e-04
 Identities = 44/243 (18%), Positives = 80/243 (32%), Gaps = 25/243 (10%)

Query: 18  RRCISCFWEKLLMCSVGKPIR-YRMLPRSTVTSPSPSVLESGLVPGTTVRPSLCHSHRHL 76
            +    FW    +    +P+R  +   +  +                     +  +  ++
Sbjct: 93  TKSGKKFWNLFHL----QPMRDQKGDVQYFIGVQLDGTEHVRDAAEREGVMLIKKTAENI 148

Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSI 136
           D      +K  ++GD  +GKT  L  Y  +       P    N     ++V G  ++  +
Sbjct: 149 DEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS-ANVMVDGKPVNLGL 207

Query: 137 WEVTGDAKAQDHL----PVACKDSIAILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPI 191
           W+  G     +      P++   +   L  F L S  +   V  +WY + R        I
Sbjct: 208 WDTAG----LEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPII 263

Query: 192 IIGTKFD------DFIQLPIDLQWTIA-SQARAYAKALNATLFF-SSATYNINVNKILKF 243
           ++GTK D         +L       I   Q  A AK + A  +   SA     +  +  F
Sbjct: 264 LVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTV--F 321

Query: 244 ITA 246
             A
Sbjct: 322 DEA 324

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 39.6 bits (92), Expect = 6e-04
 Identities = 27/188 (14%), Positives = 63/188 (33%), Gaps = 11/188 (5%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ L+G    GK+S       +              ++ + L     ++ ++W+  G   
Sbjct: 5   KLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQDV 64

Query: 145 AQDH-----LPVACKDSIAILFMFDLTSRCTLKSVIRWY---QQARKCNQTAIPIIIGTK 196
             ++          +    ++ +FD+ S   LK +  +    +Q RK +  A   ++  K
Sbjct: 65  FMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHK 124

Query: 197 FDDFIQ-LPIDLQWTIASQARAYAK--ALNATLFFSSATYNINVNKILKFITAKLFDIPW 253
            D        +L   +       +        + F ++ ++ ++ K    I   L     
Sbjct: 125 MDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDESLYKAWSQIVCSLIPNMS 184

Query: 254 TLERNLTI 261
             + NL  
Sbjct: 185 NHQSNLKK 192

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	268
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	100.0
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	100.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	100.0
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	100.0
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	100.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	100.0
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	100.0
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.98
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.98
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.98
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.98
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.98
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.97
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.97
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.97
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.97
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.97
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.97
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.97
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.97
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.97
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.97
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.96
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.96
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.96
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.93
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.96
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.96
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.96
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.95
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.95
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.95
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.95
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.95
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.94
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.94
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.94
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.94
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.94
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.93
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.93
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.93
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.93
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.92
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.92
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.92
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.92
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.91
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.91
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.91
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.91
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.9
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.89
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.89
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.88
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.88
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.88
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.87
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.87
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.87
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.87
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.87
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.86
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.86
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.86
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.85
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.85
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.85
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.85
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.85
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.85
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.84
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.84
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.84
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.84
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.83
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.83
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.82
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.82
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.82
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.82
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.82
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.82
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.82
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.82
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.81
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.81
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.8
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.8
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.8
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.79
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.79
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.79
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.79
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.78
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.78
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.78
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.77
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.77
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.77
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.77
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.76
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.75
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.74
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.74
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.73
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.71
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.7
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.68
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.68
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.68
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.67
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.67
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.66
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.64
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.64
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.64
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.62
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.61
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.59
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.55
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.54
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.49
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.46
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.45
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.4
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.38
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.36
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.27
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.26
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.24
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.2
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.19
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.18
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.16
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.16
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.08
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.06
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.95
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.67
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.59
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.5
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.49
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.45
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.44
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.4
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.33
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.21
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	98.19
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.98
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.97
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.86
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.77
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	97.76
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.7
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.69
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.51
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.24
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.13
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	96.94
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.66
2xxa_A	433	Signal recognition particle protein; protein trans	96.56
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.44
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.33
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.16
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.13
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.11
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.09
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.09
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.08
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.07
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.0
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.99
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.88
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	95.83
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.82
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.82
2chg_A	226	Replication factor C small subunit; DNA-binding pr	95.79
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.78
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.7
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.69
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.67
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.67
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.63
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.63
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.63
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.61
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.6
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.6
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.58
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.56
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.55
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.54
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.54
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.54
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.51
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.51
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	95.51
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.5
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.49
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.48
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	95.47
1g6h_A	257	High-affinity branched-chain amino acid transport	95.46
3co5_A	143	Putative two-component system transcriptional RES	95.43
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	95.43
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.42
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.42
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.42
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.42
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	95.41
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.4
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.39
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.39
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.39
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.38
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.38
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.37
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.36
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.35
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.35
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.34
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.33
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.32
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.31
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.29
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.28
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.28
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.28
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.26
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.26
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.26
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.23
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.22
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.21
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.2
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.2
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.19
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.18
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.17
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.15
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.14
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	95.13
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.1
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.09
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.09
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.09
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.09
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.08
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	95.05
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.04
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.02
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.01
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.93
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	94.91
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	94.9
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	94.89
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	94.88
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	94.88
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.86
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	94.86
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.85
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	94.84
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	94.8
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	94.78
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	94.75
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	94.75
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.75
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	94.72
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	94.71
1via_A	175	Shikimate kinase; structural genomics, transferase	94.71
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.67
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	94.67
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.67
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	94.66
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	94.65
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	94.64
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.63
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	94.62
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.61
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.6
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.57
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.56
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.54
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.53
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.53
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.44
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	94.43
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	94.42
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.41
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.39
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.39
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.38
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.38
3uc9_A	233	Increased recombination centers protein 6; rossman	94.37
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.35
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	94.35
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.34
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.34
3bos_A	242	Putative DNA replication factor; P-loop containing	94.32
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	94.32
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	94.31
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	94.29
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.29
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.27
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.25
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.24
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.24
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.24
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	94.23
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.22
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.2
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.19
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.18
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	94.15
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.13
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.11
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.1
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	94.08
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.06
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.05
2cvh_A	220	DNA repair and recombination protein RADB; filamen	94.05
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.03
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	94.02
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.01
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	93.99
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	93.98
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	93.97
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	93.96
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	93.93
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.9
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.79
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	93.79
2og2_A	359	Putative signal recognition particle receptor; nuc	93.77
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.73
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	93.69
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	93.68
1p9r_A	418	General secretion pathway protein E; bacterial typ	93.58
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.57
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	93.55
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.54
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	93.49
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	93.45
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	93.43
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	93.4
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	93.4
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	93.36
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	93.36
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	93.33
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	93.27
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	93.21
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	93.21
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	93.2
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	93.17
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	93.11
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	93.1
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.06
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.03
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	93.02
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.01
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	92.95
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	92.91
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	92.9
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	92.9
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	92.89
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	92.82
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	92.78
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	92.78
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	92.74
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	92.73
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	92.7
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	92.66
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	92.61
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	92.55
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.51
2fna_A	357	Conserved hypothetical protein; structural genomic	92.49
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	92.39
3cwq_A	209	Para family chromosome partitioning protein; alpha	92.39
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	92.37
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	92.32
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	92.26
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	92.18
1tue_A	212	Replication protein E1; helicase, replication, E1E	92.18
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	92.15
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	92.13
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	92.1
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	92.08
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	92.07
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	92.04
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	92.0
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	92.0
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	92.0
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	91.96
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	91.94
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	91.94
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	91.92
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	91.89
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	91.88
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	91.82
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	91.8
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	91.77
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	91.77
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	91.74
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	91.73
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	91.72
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	91.66
2qgz_A	308	Helicase loader, putative primosome component; str	91.6
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	91.56
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	91.54
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	91.54
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	91.53
2r44_A	331	Uncharacterized protein; putative ATPase, structur	91.47
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	91.35
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	91.32
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	91.26
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	91.22
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	91.19
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	91.19
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	91.16
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	91.15
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	91.14
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	91.11
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	91.07
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	91.02
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	90.99
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	90.96

>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=100.00  E-value=9.4e-42  Score=282.65  Aligned_cols=168  Identities=22%  Similarity=0.413  Sum_probs=140.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      +.+.+||+|+|++|||||||++||+.+.|...+.+|+|.++..+.+.+++..+.++||||+|+++|..+++.|+++++++
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~   89 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAA   89 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEE
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEE
Confidence            55679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      ++|||+++++||+++..|+..+.......+| ||||||+||.     +.+.+..+++++++++++++|+||||++|.||+
T Consensus        90 ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~-----~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~  164 (216)
T 4dkx_A           90 VVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA-----DKRQVSIEEGERKAKELNVMFIETSAKAGYNVK  164 (216)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHH
T ss_pred             EEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchH-----hcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHH
Confidence            9999999999999999999999887554455 6999999972     334566899999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|+.|++.+....
T Consensus       165 e~F~~i~~~i~~~~  178 (216)
T 4dkx_A          165 QLFRRVAAALPGME  178 (216)
T ss_dssp             HHHHHHHHHC----
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999999987654

>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=100.00  E-value=2e-34  Score=232.62  Aligned_cols=163  Identities=20%  Similarity=0.324  Sum_probs=141.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|+++.|...+.+|. .++ .+.+.+++..+.+++|||+|++.|.     +++++|++
T Consensus        17 ~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~-~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~   89 (184)
T 3ihw_A           17 QGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEG-GRF-KKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAV   89 (184)
T ss_dssp             CCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTC-EEE-EEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEE
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCc-ceE-EEEEEECCEEEEEEEEECCCChhhh-----eecCCCEE
Confidence            5567999999999999999999999999988888874 344 4788899999999999999999876     88899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-CeEEEEcCCCCcC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-ATLFFSSATYNIN  236 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~  236 (268)
                      ++|||+++.++|+.+..|+..+....  .+.|.+|||||+|+   .....+.+..+++.++++.++ ++|++|||++|.|
T Consensus        90 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl---~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~g  166 (184)
T 3ihw_A           90 VFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAI---SAANPRVIDDSRARKLSTDLKRCTYYETCATYGLN  166 (184)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTC---BTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBT
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccc---ccccccccCHHHHHHHHHHcCCCeEEEecCCCCCC
Confidence            99999999999999999999998874  34555799999997   222334455888999999997 8999999999999


Q ss_pred             HHHHHHHHHHHHhcCc
Q 041042          237 VNKILKFITAKLFDIP  252 (268)
Q Consensus       237 i~~~f~~l~~~i~~~~  252 (268)
                      |+++|++|++.+.+.+
T Consensus       167 v~~lf~~l~~~i~~~~  182 (184)
T 3ihw_A          167 VERVFQDVAQKVVALR  182 (184)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999999887653

>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=100.00  E-value=1.5e-34  Score=238.97  Aligned_cols=177  Identities=24%  Similarity=0.289  Sum_probs=146.6

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      +....+||+|+|++|||||||+++|.++.+...+.+|++.++ .+.+.+++..+.+++|||+|+++|..++..+++++|+
T Consensus        23 ~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~  101 (214)
T 3q3j_B           23 PVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDA  101 (214)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             CccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeE
Confidence            356679999999999999999999999999999999999876 4677788889999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHH-HHHHHHHHHHhCCCCceEEEEeCCCCCCCCC-------ccchhchHHHHHHHHHHhCC-eEEEE
Q 041042          159 ILFMFDLTSRCTLKS-VIRWYQQARKCNQTAIPIIIGTKFDDFIQLP-------IDLQWTIASQARAYAKALNA-TLFFS  229 (268)
Q Consensus       159 vilv~D~~~~~s~~~-~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~-------~~~~~~~~~~~~~~~~~~~~-~~~~~  229 (268)
                      +|+|||+++.++|+. +..|+..+....++.|++|||||+|+.....       ...+.+..+++..+++.+++ +|++|
T Consensus       102 ~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~  181 (214)
T 3q3j_B          102 VLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEG  181 (214)
T ss_dssp             EEEEEETTCTHHHHHHHTHHHHHHHHHCTTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEEe
Confidence            999999999999999 6899999999887767789999999721000       00134558899999999999 99999


Q ss_pred             cCCCCcC-HHHHHHHHHHHHhcCccchh
Q 041042          230 SATYNIN-VNKILKFITAKLFDIPWTLE  256 (268)
Q Consensus       230 Sa~~~~~-i~~~f~~l~~~i~~~~~~~~  256 (268)
                      ||++|.| |+++|++|++.+.+.....+
T Consensus       182 SA~~g~g~v~~lf~~l~~~~~~~~~~~~  209 (214)
T 3q3j_B          182 SAFTSEKSIHSIFRTASMLCLNKPSPLP  209 (214)
T ss_dssp             CTTTCHHHHHHHHHHHHHHHHC------
T ss_pred             ccCCCcccHHHHHHHHHHHHhccCcCCC
Confidence            9999998 99999999999988765433

>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=100.00  E-value=1.6e-34  Score=236.41  Aligned_cols=167  Identities=22%  Similarity=0.372  Sum_probs=141.2

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.++.+...+.+|++.++..+.+.+++..+.+++|||+|+++|..++..+++++|++
T Consensus        26 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~i  105 (201)
T 2hup_A           26 YDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGA  105 (201)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEE
T ss_pred             cccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEE
Confidence            56679999999999999999999999999888899999999888999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~i  237 (268)
                      |+|||+++.++|+.+..|+..+...... .|++||+||+|+.     ..+.+..+++.++++..++ ++++|||++|.||
T Consensus       106 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi  180 (201)
T 2hup_A          106 ILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLS-----ELREVSLAEAQSLAEHYDILCAIETSAKDSSNV  180 (201)
T ss_dssp             EEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccc-----cccccCHHHHHHHHHHcCCCEEEEEeCCCCCCH
Confidence            9999999999999999999999887644 4457999999972     1233457888999999999 9999999999999


Q ss_pred             HHHHHHHHHHHhcC
Q 041042          238 NKILKFITAKLFDI  251 (268)
Q Consensus       238 ~~~f~~l~~~i~~~  251 (268)
                      +++|++|++.+.+.
T Consensus       181 ~~l~~~l~~~i~~~  194 (201)
T 2hup_A          181 EEAFLRVATELIMR  194 (201)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988754

>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=100.00  E-value=2.8e-34  Score=235.21  Aligned_cols=167  Identities=19%  Similarity=0.377  Sum_probs=150.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++.++..+.+.+++..+.+++|||+|+++|..++..+++++|++
T Consensus        23 ~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  102 (201)
T 2ew1_A           23 YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANAL  102 (201)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEE
T ss_pred             cccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEE
Confidence            56679999999999999999999999999888999999999989999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++.++|+.+..|+..+.......+| +||+||+|+.     ..+.+..++++.+++..++++++|||++|.||+
T Consensus       103 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~  177 (201)
T 2ew1_A          103 ILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLA-----ERREVSQQRAEEFSEAQDMYYLETSAKESDNVE  177 (201)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-----GGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-----cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            9999999999999999999999888655555 6999999972     223344778889999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|++.+.+.
T Consensus       178 ~l~~~l~~~i~~~  190 (201)
T 2ew1_A          178 KLFLDLACRLISE  190 (201)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988764

>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=100.00  E-value=3.3e-34  Score=231.77  Aligned_cols=164  Identities=13%  Similarity=0.140  Sum_probs=140.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.++.+...+.+|++.++ ...+.+++..+.+++|||+|+++|..+ ..+++++|++
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~   95 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAF   95 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEE
Confidence            45579999999999999999999999999889999998776 466778999999999999999998876 6799999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcC-CCC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSA-TYN  234 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa-~~~  234 (268)
                      |+|||+++.++|+.+..|+..+....    .+.|.||||||+|+.     ..+.+..+++.++++.+++++++||| ++|
T Consensus        96 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g  170 (187)
T 3c5c_A           96 LVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMA-----QYRQVTKAEGVALAGRFGCLFFEVSACLDF  170 (187)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGG-----GGCSSCHHHHHHHHHHHTCEEEECCSSSCS
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchh-----hcCccCHHHHHHHHHHcCCcEEEEeecCcc
Confidence            99999999999999999999998763    456668999999962     22344578899999999999999999 899


Q ss_pred             cCHHHHHHHHHHHHhc
Q 041042          235 INVNKILKFITAKLFD  250 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~  250 (268)
                      .||+++|+.|++.+.+
T Consensus       171 ~gv~~lf~~l~~~i~~  186 (187)
T 3c5c_A          171 EHVQHVFHEAVREARR  186 (187)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHhh
Confidence            9999999999988754

>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=100.00  E-value=7e-34  Score=230.72  Aligned_cols=171  Identities=19%  Similarity=0.300  Sum_probs=151.6

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      .....+||+++|++|||||||+++|.++.+...+.+|++.++. ..+.+++..+.+++|||+|+++|..++..+++++|+
T Consensus        19 ~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   97 (194)
T 3reg_A           19 NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDV   97 (194)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             ccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcE
Confidence            3566899999999999999999999999998889999987775 567789999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHH-HHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe-EEEEcCCCCcC
Q 041042          159 ILFMFDLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT-LFFSSATYNIN  236 (268)
Q Consensus       159 vilv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~  236 (268)
                      +|+|||+++.++|+.+ ..|+..+....++.|.+||+||+|+   ..+..+.+..+++.++++.+++. ++++||++|.|
T Consensus        98 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  174 (194)
T 3reg_A           98 VLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDL---RKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIG  174 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHCTTSEEEEEEECGGG---CCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBS
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhh---ccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCC
Confidence            9999999999999997 6899999888777777899999997   22223455688999999999998 99999999999


Q ss_pred             HHHHHHHHHHHHhcCcc
Q 041042          237 VNKILKFITAKLFDIPW  253 (268)
Q Consensus       237 i~~~f~~l~~~i~~~~~  253 (268)
                      |+++|++|++.+.+.+.
T Consensus       175 i~~l~~~l~~~i~~~~~  191 (194)
T 3reg_A          175 LNEVFEKSVDCIFSNKP  191 (194)
T ss_dssp             HHHHHHHHHHHHHCSCC
T ss_pred             HHHHHHHHHHHHHhcCC
Confidence            99999999999987753

>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=100.00  E-value=8.8e-34  Score=229.73  Aligned_cols=167  Identities=18%  Similarity=0.326  Sum_probs=145.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.++.+...+.+|++.++..+.+.+++..+.+++|||+|++.|..++..+++++|++
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   97 (191)
T 2a5j_A           18 GSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGA   97 (191)
T ss_dssp             TCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCEE
Confidence            55679999999999999999999999999888889999999888899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++.++|+.+..|+..+........| +||+||+|+.     ..+.+..+++..+++.++++++++||++|.||+
T Consensus        98 i~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (191)
T 2a5j_A           98 LLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE-----SRRDVKREEGEAFAREHGLIFMETSAKTACNVE  172 (191)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccC-----CccccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            9999999999999999999999887554444 7999999972     223344778899999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|++.+.+.
T Consensus       173 ~l~~~l~~~i~~~  185 (191)
T 2a5j_A          173 EAFINTAKEIYRK  185 (191)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988754

>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=100.00  E-value=1.5e-33  Score=227.89  Aligned_cols=166  Identities=25%  Similarity=0.411  Sum_probs=148.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|+|.++....+..++..+.+++|||+|++.+..++..+++.+|++
T Consensus        19 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   98 (189)
T 2gf9_A           19 SDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGF   98 (189)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEE
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEE
Confidence            45579999999999999999999999999888899999999888888899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+...... .|++||+||+|+.     ..+.+..++++++++.++++++++||++|.|++
T Consensus        99 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  173 (189)
T 2gf9_A           99 LLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLE-----DERVVPAEDGRRLADDLGFEFFEASAKENINVK  173 (189)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccc-----cccCCCHHHHHHHHHHcCCeEEEEECCCCCCHH
Confidence            9999999999999999999999887644 4457999999972     223344678899999999999999999999999


Q ss_pred             HHHHHHHHHHhc
Q 041042          239 KILKFITAKLFD  250 (268)
Q Consensus       239 ~~f~~l~~~i~~  250 (268)
                      ++|++|++.+.+
T Consensus       174 ~l~~~l~~~i~~  185 (189)
T 2gf9_A          174 QVFERLVDVICE  185 (189)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998864

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=1.3e-33  Score=225.61  Aligned_cols=168  Identities=21%  Similarity=0.388  Sum_probs=150.4

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++.+|++
T Consensus         6 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   85 (181)
T 3tw8_B            6 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGV   85 (181)
T ss_dssp             CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEE
Confidence            45679999999999999999999999998888999999999989999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |+|||+++..+|+.+..|+..+....++.|.|||+||+|+.     ..+....+++..++...+++++++||++|.|+++
T Consensus        86 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  160 (181)
T 3tw8_B           86 IVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDP-----ERKVVETEDAYKFAGQMGIQLFETSAKENVNVEE  160 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHCTTSEEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCCCc-----hhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHH
Confidence            99999999999999999999998887777778999999972     2233447888999999999999999999999999


Q ss_pred             HHHHHHHHHhcCc
Q 041042          240 ILKFITAKLFDIP  252 (268)
Q Consensus       240 ~f~~l~~~i~~~~  252 (268)
                      +|++|.+.+.+..
T Consensus       161 l~~~l~~~~~~~~  173 (181)
T 3tw8_B          161 MFNCITELVLRAK  173 (181)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999887765

>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=100.00  E-value=2.1e-33  Score=225.03  Aligned_cols=170  Identities=16%  Similarity=0.145  Sum_probs=148.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++.++ ...+.+++..+.+++|||+|++.|..++..+++.+|++
T Consensus         3 ~~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   81 (181)
T 3t5g_A            3 QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGY   81 (181)
T ss_dssp             CEEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEE
Confidence            34579999999999999999999999999889999998877 67888899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      ++|||+++.++|+.+..|+..+.....  +.|.+||+||+|+.     ..+.+..+++..+++.++++++++||++|.|+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  156 (181)
T 3t5g_A           82 ILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLH-----MERVISYEEGKALAESWNAAFLESSAKENQTA  156 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCT-----TTCCSCHHHHHHHHHHTTCEEEECCTTSHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccch-----hcceecHHHHHHHHHHhCCcEEEEecCCCCCH
Confidence            999999999999999999999877632  45557999999972     22445578899999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCccch
Q 041042          238 NKILKFITAKLFDIPWTL  255 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~~~~  255 (268)
                      +++|++|++.+.......
T Consensus       157 ~~l~~~l~~~~~~~~~~~  174 (181)
T 3t5g_A          157 VDVFRRIILEAEKMDGAC  174 (181)
T ss_dssp             HHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHHHHHhcCCc
Confidence            999999999998876443

>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=100.00  E-value=6.6e-34  Score=231.76  Aligned_cols=168  Identities=15%  Similarity=0.206  Sum_probs=142.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc-chhhhhcCCcE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD-HLPVACKDSIA  158 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~-~~~~~~~~a~~  158 (268)
                      ....+||+|+|++|||||||+++|.+..+...+.++++.++..+.+.+++..+.+++|||+|++.+.. ++..|++++|+
T Consensus        20 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~   99 (195)
T 3cbq_A           20 KDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDA   99 (195)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCSE
T ss_pred             CCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCCE
Confidence            44579999999999999999999986554444556677788888888999999999999999998765 78889999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcC
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNIN  236 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  236 (268)
                      +|+|||++++++|+.+..|+..+.....  +.|.||||||+|+.     ..+.+..++++.+++.+++++++|||++|.|
T Consensus       100 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-----~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~  174 (195)
T 3cbq_A          100 FLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA-----RSREVSLEEGRHLAGTLSCKHIETSAALHHN  174 (195)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCT-----TTCCSCHHHHHHHHHHTTCEEEEEBTTTTBS
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhcc-----ccCCcCHHHHHHHHHHhCCEEEEEcCCCCCC
Confidence            9999999999999999999999987653  45557999999972     1233457788899999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCc
Q 041042          237 VNKILKFITAKLFDIP  252 (268)
Q Consensus       237 i~~~f~~l~~~i~~~~  252 (268)
                      |+++|++|++.+.+.+
T Consensus       175 v~~lf~~l~~~i~~~~  190 (195)
T 3cbq_A          175 TRELFEGAVRQIRLRR  190 (195)
T ss_dssp             HHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            9999999999987654

>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=100.00  E-value=1.9e-33  Score=227.65  Aligned_cols=172  Identities=20%  Similarity=0.368  Sum_probs=153.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++.+|++
T Consensus        12 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   91 (195)
T 1x3s_A           12 VLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGV   91 (195)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEE
Confidence            45679999999999999999999999999888999999999888999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+|||+++..+++.+..|+..+....  ...|++||+||+|+      ....+..+++..+++..+++++++||++|.|+
T Consensus        92 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  165 (195)
T 1x3s_A           92 ILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDK------ENREVDRNEGLKFARKHSMLFIEASAKTCDGV  165 (195)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTS------SSCCSCHHHHHHHHHHTTCEEEECCTTTCTTH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcC------cccccCHHHHHHHHHHcCCEEEEecCCCCCCH
Confidence            99999999999999999999997764  34455799999997      22334567888999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCccchhc
Q 041042          238 NKILKFITAKLFDIPWTLER  257 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~~~~~~  257 (268)
                      +++|++|.+.+.+.+...+.
T Consensus       166 ~~l~~~l~~~~~~~~~~~~~  185 (195)
T 1x3s_A          166 QCAFEELVEKIIQTPGLWES  185 (195)
T ss_dssp             HHHHHHHHHHHHTSGGGTCC
T ss_pred             HHHHHHHHHHHHhhhhhhcc
Confidence            99999999999987654444

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=100.00  E-value=3.4e-34  Score=228.75  Aligned_cols=169  Identities=20%  Similarity=0.330  Sum_probs=148.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECC-eEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRG-ARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|+|.++..+.+.+++ ..+.+++|||+|++.+..++..+++++|+
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   82 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQG   82 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCE
Confidence            34579999999999999999999999988777888999898888888887 67899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhC---CCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCN---QTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~---~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      +|+|||+++.++|+.+..|+..+....   ...|+ +||+||+|+.     ..+.+..+++..+++.++++++++||++|
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  157 (178)
T 2hxs_A           83 VLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLE-----HMRTIKPEKHLRFCQENGFSSHFVSAKTG  157 (178)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGG-----GGCSSCHHHHHHHHHHHTCEEEEECTTTC
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccc-----cccccCHHHHHHHHHHcCCcEEEEeCCCC
Confidence            999999999999999999999987753   25564 6999999972     12334467889999999999999999999


Q ss_pred             cCHHHHHHHHHHHHhcCcc
Q 041042          235 INVNKILKFITAKLFDIPW  253 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~~~~  253 (268)
                      .||+++|++|++.+.+.++
T Consensus       158 ~gi~~l~~~l~~~~~~~~~  176 (178)
T 2hxs_A          158 DSVFLCFQKVAAEILGIKL  176 (178)
T ss_dssp             TTHHHHHHHHHHHHTTCCC
T ss_pred             CCHHHHHHHHHHHHHhhhh
Confidence            9999999999999988764

>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=100.00  E-value=2.6e-34  Score=230.72  Aligned_cols=168  Identities=20%  Similarity=0.328  Sum_probs=120.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++.++..+.+.+++..+.+++|||+|++.|..++..+++++|++
T Consensus         5 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (183)
T 2fu5_C            5 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   84 (183)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEE
Confidence            34579999999999999999999999988888889999999888888999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||++++.+|+.+..|+..+...... .|++||+||+|+.     ..+.+..+++.++++.++++++++||++|.||+
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  159 (183)
T 2fu5_C           85 MLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVN-----DKRQVSKERGEKLALDYGIKFMETSAKANINVE  159 (183)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CC-----SCCCSCHHHHHHHHHHHTCEEEECCC---CCHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCC-----ccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHH
Confidence            9999999999999999999999887544 4457999999973     113345788899999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|++|.+.+.+..
T Consensus       160 ~l~~~l~~~i~~~~  173 (183)
T 2fu5_C          160 NAFFTLARDIKAKM  173 (183)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999887653

>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=100.00  E-value=2.2e-33  Score=221.77  Aligned_cols=166  Identities=19%  Similarity=0.370  Sum_probs=147.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++++|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEE
Confidence            46899999999999999999999999888899999999988888999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccc-hhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDL-QWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||+++..+++.+..|+..+.......+| ++|+||+|+.   .... +.+..+++..+++..+++++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~---~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  158 (170)
T 1ek0_A           82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXL---QEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVND  158 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG---GSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHH
T ss_pred             EEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcc---ccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            99999999999999999999887644444 6999999973   2211 33457888999999999999999999999999


Q ss_pred             HHHHHHHHHhc
Q 041042          240 ILKFITAKLFD  250 (268)
Q Consensus       240 ~f~~l~~~i~~  250 (268)
                      +|++|.+.+.+
T Consensus       159 l~~~l~~~i~~  169 (170)
T 1ek0_A          159 VFLGIGEKIPL  169 (170)
T ss_dssp             HHHHHHTTSCC
T ss_pred             HHHHHHHHHhh
Confidence            99999887643

>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=100.00  E-value=1.5e-33  Score=223.12  Aligned_cols=165  Identities=22%  Similarity=0.427  Sum_probs=141.0

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++++|+++
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   83 (170)
T 1z08_A            4 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAI   83 (170)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEE
Confidence            45799999999999999999999999998889999999998888889999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      +|||+++.++|+.+..|+..+..... +.|+++|+||+|+.     ..+.+..+++.++++..+++++++||++|.|+++
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  158 (170)
T 1z08_A           84 LVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE-----KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEE  158 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccc-----cccccCHHHHHHHHHHcCCeEEEecCCCCCCHHH
Confidence            99999999999999999999877653 44447999999972     1233447788999999999999999999999999


Q ss_pred             HHHHHHHHHhc
Q 041042          240 ILKFITAKLFD  250 (268)
Q Consensus       240 ~f~~l~~~i~~  250 (268)
                      +|++|++.+.+
T Consensus       159 l~~~l~~~~~~  169 (170)
T 1z08_A          159 LFLDLCKRMIE  169 (170)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhh
Confidence            99999998764

>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=100.00  E-value=1.8e-33  Score=222.06  Aligned_cols=164  Identities=18%  Similarity=0.372  Sum_probs=148.9

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++.+|++++
T Consensus         4 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   83 (168)
T 1z2a_A            4 VAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVL   83 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEE
T ss_pred             eeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEE
Confidence            46999999999999999999999999988899999999988999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |||+++.++++.+..|+..+.....+.|.++|+||+|+.     ..+.+..+++..+++..+++++++||++|.|++++|
T Consensus        84 v~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  158 (168)
T 1z2a_A           84 VFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLL-----DDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVF  158 (168)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGG-----GGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccC-----cccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHH
Confidence            999999999999999999998876666778999999972     122344778889999999999999999999999999


Q ss_pred             HHHHHHHhc
Q 041042          242 KFITAKLFD  250 (268)
Q Consensus       242 ~~l~~~i~~  250 (268)
                      ++|.+.+.+
T Consensus       159 ~~l~~~~~~  167 (168)
T 1z2a_A          159 KYLAEKHLQ  167 (168)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhh
Confidence            999998865

>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=100.00  E-value=6.5e-33  Score=219.28  Aligned_cols=166  Identities=27%  Similarity=0.453  Sum_probs=148.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|.+|||||||+++|.++.+...+.+|.|.++....+.+++..+.+.+|||+|++++..++..+++++|++
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~   82 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAA   82 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEE
Confidence            45679999999999999999999999998888999999999888899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+++.+..|+..+.......+| ++|+||+|+.     ..+.+..+++..+++..+++++++||++|.|++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  157 (170)
T 1z0j_A           83 IIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLT-----DVREVMERDAKDYADSIHAIFVETSAKNAININ  157 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccc-----cccccCHHHHHHHHHHcCCEEEEEeCCCCcCHH
Confidence            9999999999999999999999888555555 6999999972     223344778889999999999999999999999


Q ss_pred             HHHHHHHHHHhc
Q 041042          239 KILKFITAKLFD  250 (268)
Q Consensus       239 ~~f~~l~~~i~~  250 (268)
                      ++|++|.+.+.+
T Consensus       158 ~l~~~i~~~i~~  169 (170)
T 1z0j_A          158 ELFIEISRRIPS  169 (170)
T ss_dssp             HHHHHHHHHCCC
T ss_pred             HHHHHHHHHHhc
Confidence            999999988753

>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=100.00  E-value=3.3e-33  Score=220.78  Aligned_cols=166  Identities=20%  Similarity=0.378  Sum_probs=147.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++.++..+.+.+++..+.+++|||+|++.+..++..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEE
Confidence            34679999999999999999999999998888889999999888899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+........| +||+||+|+.     ..+....+++.++++..+++++++||++|.|++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  157 (170)
T 1r2q_A           83 IVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLA-----NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVN  157 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCc-----cccccCHHHHHHHHHHcCCeEEEEeCCCCCCHH
Confidence            9999999999999999999999887544444 6999999962     122344678889999999999999999999999


Q ss_pred             HHHHHHHHHHhc
Q 041042          239 KILKFITAKLFD  250 (268)
Q Consensus       239 ~~f~~l~~~i~~  250 (268)
                      ++|++|.+.+.+
T Consensus       158 ~l~~~i~~~~~~  169 (170)
T 1r2q_A          158 EIFMAIAKKLPK  169 (170)
T ss_dssp             HHHHHHHHTSCC
T ss_pred             HHHHHHHHHHhh
Confidence            999999987643

>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=100.00  E-value=4e-33  Score=222.30  Aligned_cols=166  Identities=20%  Similarity=0.340  Sum_probs=148.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++.++..+.+.+++..+.+.+|||+|++.+..++..+++++|++
T Consensus        12 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   91 (179)
T 1z0f_A           12 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA   91 (179)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCEE
Confidence            45579999999999999999999999999888899999999888889999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+++.+..|+..+..... +.|++||+||+|+.     ..+.+..++++++++.++++++++||++|.|++
T Consensus        92 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  166 (179)
T 1z0f_A           92 LMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE-----AQRDVTYEEAKQFAEENGLLFLEASAKTGENVE  166 (179)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHH
T ss_pred             EEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-----cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            999999999999999999999988764 44447999999972     223344788899999999999999999999999


Q ss_pred             HHHHHHHHHHhc
Q 041042          239 KILKFITAKLFD  250 (268)
Q Consensus       239 ~~f~~l~~~i~~  250 (268)
                      ++|++|++.+.+
T Consensus       167 ~l~~~l~~~i~~  178 (179)
T 1z0f_A          167 DAFLEAAKKIYQ  178 (179)
T ss_dssp             HHHHHHHHHHC-
T ss_pred             HHHHHHHHHHhh
Confidence            999999998864

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=100.00  E-value=5.5e-33  Score=225.22  Aligned_cols=168  Identities=19%  Similarity=0.351  Sum_probs=152.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.++++.++....+.+++..+.+.+|||+|++.+..++..+++.+|++
T Consensus        13 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   92 (196)
T 3tkl_A           13 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGI   92 (196)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEE
T ss_pred             cccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEE
Confidence            45679999999999999999999999999889999999999989999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+........| +||+||+|+.     ..+.+..+++..+++.++++++++||++|.|++
T Consensus        93 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~  167 (196)
T 3tkl_A           93 IVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT-----TKKVVDYTTAKEFADSLGIPFLETSAKNATNVE  167 (196)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT-----TTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccc-----cccccCHHHHHHHHHHcCCcEEEEeCCCCCCHH
Confidence            9999999999999999999999888665555 7999999972     223344678899999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|++|++.+.+..
T Consensus       168 ~l~~~l~~~i~~~~  181 (196)
T 3tkl_A          168 QSFMTMAAEIKKRM  181 (196)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999887754

>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=100.00  E-value=3.6e-33  Score=226.20  Aligned_cols=167  Identities=20%  Similarity=0.368  Sum_probs=149.4

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|+|.++..+.+.+++..+.+.+|||+|++++..++..+++++|++
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~v  101 (193)
T 2oil_A           22 YNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGA  101 (193)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEE
Confidence            56679999999999999999999999999888899999999888889999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+....... |++||+||+|+.     ..+.+..+++..+++..+++++++||++|.|++
T Consensus       102 i~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  176 (193)
T 2oil_A          102 LLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLS-----QAREVPTEEARMFAENNGLLFLETSALDSTNVE  176 (193)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcc-----cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            99999999999999999999998775444 447999999972     122344778899999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|.+.+.+.
T Consensus       177 ~l~~~l~~~i~~~  189 (193)
T 2oil_A          177 LAFETVLKEIFAK  189 (193)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988653

>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=100.00  E-value=5.6e-33  Score=222.21  Aligned_cols=168  Identities=24%  Similarity=0.406  Sum_probs=148.2

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+++|||+|++++..++..+++.+|++
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   88 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAA   88 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEE
T ss_pred             CccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEE
Confidence            45679999999999999999999999999888889999999888899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+....... |++||+||+|+.     ..+.+..+++.++++.++++++++||++|.|++
T Consensus        89 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  163 (181)
T 2efe_B           89 IIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLL-----DARKVTAEDAQTYAQENGLFFMETSAKTATNVK  163 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCT-----TTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCccc-----ccccCCHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence            99999999999999999999998876444 447999999972     123344778899999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|++|.+.+...+
T Consensus       164 ~l~~~l~~~~~~~~  177 (181)
T 2efe_B          164 EIFYEIARRLPRVQ  177 (181)
T ss_dssp             HHHHHHHHTCC---
T ss_pred             HHHHHHHHHHHhcC
Confidence            99999999887654

>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=100.00  E-value=2.5e-33  Score=221.72  Aligned_cols=164  Identities=23%  Similarity=0.421  Sum_probs=141.4

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++++|++|+
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEE
Confidence            35899999999999999999999999988899999999888888889989999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      |||+++..+|+.+..|+..+....... |.++|+||+|+      ..+.+..+++.++++.++++++++||++|.|++++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l  155 (170)
T 1g16_A           82 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM------ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEI  155 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC------TTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccC------CcCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHH
Confidence            999999999999999999998876544 44799999996      22334567888999999999999999999999999


Q ss_pred             HHHHHHHHhcC
Q 041042          241 LKFITAKLFDI  251 (268)
Q Consensus       241 f~~l~~~i~~~  251 (268)
                      |++|.+.+.+.
T Consensus       156 ~~~l~~~~~~~  166 (170)
T 1g16_A          156 FFTLAKLIQEK  166 (170)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            99999988754

>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=100.00  E-value=2.3e-33  Score=231.51  Aligned_cols=166  Identities=17%  Similarity=0.233  Sum_probs=137.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC--CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc-cccchhhhhcCC
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE--KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK-AQDHLPVACKDS  156 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-~~~~~~~~~~~a  156 (268)
                      ....+||+|+|++|||||||+++|++..  |... .+++|.++..+.+.+++..+.+.+|||+|++. +..+...|++.+
T Consensus        34 ~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~-~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a  112 (211)
T 2g3y_A           34 GNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD-CEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVG  112 (211)
T ss_dssp             -CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCC
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCc-CCccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhC
Confidence            4456999999999999999999999743  4433 34578888888889999999999999999887 566778889999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC
Q 041042          157 IAILFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       157 ~~vilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      +++|+|||+++.+||+.+..|+..+....  .+.|+||||||+||.     ..+.+..++++.++..++++|++|||++|
T Consensus       113 ~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~-----~~r~v~~~e~~~~a~~~~~~~~e~SAk~g  187 (211)
T 2g3y_A          113 DAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV-----RCREVSVSEGRACAVVFDCKFIETSAAVQ  187 (211)
T ss_dssp             SEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEECBTTTT
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHh-----cCceEeHHHHHHHHHHcCCEEEEEeCCCC
Confidence            99999999999999999999998887642  345567999999972     12334467788899999999999999999


Q ss_pred             cCHHHHHHHHHHHHhcC
Q 041042          235 INVNKILKFITAKLFDI  251 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~~  251 (268)
                      .||+++|++|++.+...
T Consensus       188 ~~v~elf~~l~~~i~~~  204 (211)
T 2g3y_A          188 HNVKELFEGIVRQVRLR  204 (211)
T ss_dssp             BSHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999999988543

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=100.00  E-value=1.5e-33  Score=228.75  Aligned_cols=166  Identities=20%  Similarity=0.395  Sum_probs=140.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++.++..+.+.+++..+.+++|||+|++++..++..+++++|++
T Consensus        23 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~i  102 (192)
T 2il1_A           23 ADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGI  102 (192)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEE
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEE
Confidence            45679999999999999999999999998888899999999888999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHh-CCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-NATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i  237 (268)
                      |+|||+++..+|+.+..|+..+........| +||+||+|+.     ..+.+..++++++++.. +++++++||++|.||
T Consensus       103 ilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi  177 (192)
T 2il1_A          103 ILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE-----TDREITRQQGEKFAQQITGMRFCEASAKDNFNV  177 (192)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-----GGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-----cccccCHHHHHHHHHhcCCCeEEEEeCCCCCCH
Confidence            9999999999999999999999887654444 7999999972     12334467788899885 899999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 041042          238 NKILKFITAKLFD  250 (268)
Q Consensus       238 ~~~f~~l~~~i~~  250 (268)
                      +++|++|.+.+.+
T Consensus       178 ~~l~~~l~~~i~~  190 (192)
T 2il1_A          178 DEIFLKLVDDILK  190 (192)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998864

>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=100.00  E-value=5.1e-33  Score=221.70  Aligned_cols=167  Identities=20%  Similarity=0.317  Sum_probs=144.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++.+|++
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   83 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCC   83 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEE
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEE
Confidence            45679999999999999999999999999888999999999888999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC-----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-HhCCeEEEEcCCC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN-----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-ALNATLFFSSATY  233 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~-----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~  233 (268)
                      ++|||+++..+++.+..|+..+....     .+.|.++|+||+|+.      ...+..+++.++++ ..+++++++||++
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  157 (177)
T 1wms_A           84 LLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS------ERQVSTEEAQAWCRDNGDYPYFETSAKD  157 (177)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS------SCSSCHHHHHHHHHHTTCCCEEECCTTT
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc------ccccCHHHHHHHHHhcCCceEEEEeCCC
Confidence            99999999999999999999987764     344557999999972      23445778888888 5678999999999


Q ss_pred             CcCHHHHHHHHHHHHhcCc
Q 041042          234 NINVNKILKFITAKLFDIP  252 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~~  252 (268)
                      |.|++++|++|++.+.+.+
T Consensus       158 ~~gi~~l~~~l~~~~~~~~  176 (177)
T 1wms_A          158 ATNVAAAFEEAVRRVLATE  176 (177)
T ss_dssp             CTTHHHHHHHHHHHHHTC-
T ss_pred             CCCHHHHHHHHHHHHHhhc
Confidence            9999999999999987653

>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=100.00  E-value=6.2e-33  Score=222.66  Aligned_cols=165  Identities=16%  Similarity=0.208  Sum_probs=147.2

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+++|||+|++.+..++..+++++|++
T Consensus        15 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~   93 (183)
T 3kkq_A           15 NLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGF   93 (183)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCEE
Confidence            55679999999999999999999999999889999988777 67788899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHh-C-CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC-CCcC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKC-N-QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT-YNIN  236 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~-~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~-~~~~  236 (268)
                      |+|||+++.++|+.+..|+..+... . .+.|.+||+||+|+.     ..+.+..+++.++++.++++++++||+ +|.|
T Consensus        94 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~  168 (183)
T 3kkq_A           94 LIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLM-----HLRKVTRDQGKEMATKYNIPYIETSAKDPPLN  168 (183)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCS-----TTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBS
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCch-----hccCcCHHHHHHHHHHhCCeEEEeccCCCCCC
Confidence            9999999999999999999998764 2 345557999999972     223455788999999999999999999 9999


Q ss_pred             HHHHHHHHHHHHhc
Q 041042          237 VNKILKFITAKLFD  250 (268)
Q Consensus       237 i~~~f~~l~~~i~~  250 (268)
                      ++++|++|.+.+.+
T Consensus       169 v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          169 VDKTFHDLVRVIRQ  182 (183)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999998764

>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=100.00  E-value=6e-33  Score=225.10  Aligned_cols=170  Identities=17%  Similarity=0.236  Sum_probs=147.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+++|||+|+++|..++..+++++|++
T Consensus        15 ~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   93 (194)
T 2atx_A           15 GALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVF   93 (194)
T ss_dssp             EEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEE
Confidence            45679999999999999999999999999888999988766 46677888889999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCc-------cchhchHHHHHHHHHHhCC-eEEEEc
Q 041042          160 LFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPI-------DLQWTIASQARAYAKALNA-TLFFSS  230 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~-------~~~~~~~~~~~~~~~~~~~-~~~~~S  230 (268)
                      |+|||+++.++|+.+. .|+..+....++.|++||+||+|+......       ..+.+..+++.++++.+++ ++++||
T Consensus        94 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  173 (194)
T 2atx_A           94 LICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECS  173 (194)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEee
Confidence            9999999999999998 899999988777777899999997321000       0123447889999999998 999999


Q ss_pred             CCCCcCHHHHHHHHHHHHhc
Q 041042          231 ATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~~  250 (268)
                      |++|.||+++|++|++.++.
T Consensus       174 a~~g~gi~~l~~~l~~~i~~  193 (194)
T 2atx_A          174 ALTQKGLKTVFDEAIIAILT  193 (194)
T ss_dssp             TTTCTTHHHHHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999998764

>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=100.00  E-value=3e-33  Score=226.05  Aligned_cols=166  Identities=20%  Similarity=0.370  Sum_probs=143.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc-cchhhhhcCCcE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ-DHLPVACKDSIA  158 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-~~~~~~~~~a~~  158 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+++|||+|++++. .++..+++++|+
T Consensus        17 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~   96 (189)
T 1z06_A           17 RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHA   96 (189)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCE
Confidence            4457999999999999999999999999988899999999988899999999999999999999998 889999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC--
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN--  234 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~--  234 (268)
                      +|+|||+++..+|+.+..|+..+....  .+.|++||+||+|+.     ..+.+..++++.+++.++++++++||++|  
T Consensus        97 iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~  171 (189)
T 1z06_A           97 VVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR-----SAIQVPTDLAQKFADTHSMPLFETSAKNPND  171 (189)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCCEEECCSSSGGG
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-----ccceeCHHHHHHHHHHcCCEEEEEeCCcCCc
Confidence            999999999999999999999998874  445557999999972     22334577889999999999999999999  


Q ss_pred             -cCHHHHHHHHHHHHhc
Q 041042          235 -INVNKILKFITAKLFD  250 (268)
Q Consensus       235 -~~i~~~f~~l~~~i~~  250 (268)
                       .||+++|++|++.+.+
T Consensus       172 ~~~i~~l~~~l~~~i~~  188 (189)
T 1z06_A          172 NDHVEAIFMTLAHKLKS  188 (189)
T ss_dssp             GSCHHHHHHHHC-----
T ss_pred             ccCHHHHHHHHHHHHhh
Confidence             9999999999887643

>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=100.00  E-value=1.8e-33  Score=231.06  Aligned_cols=170  Identities=25%  Similarity=0.307  Sum_probs=145.2

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++.++ .+.+.+++..+.+++|||+|+++|..++..+++++|++
T Consensus        25 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  103 (205)
T 1gwn_A           25 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV  103 (205)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEE
Confidence            45679999999999999999999999999888899998776 46677888899999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHH-HHHHHHHHHhCCCCceEEEEeCCCCCCCC-------CccchhchHHHHHHHHHHhC-CeEEEEc
Q 041042          160 LFMFDLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFDDFIQL-------PIDLQWTIASQARAYAKALN-ATLFFSS  230 (268)
Q Consensus       160 ilv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~-------~~~~~~~~~~~~~~~~~~~~-~~~~~~S  230 (268)
                      |+|||+++.++|+.+ ..|+..+....++.|.||||||+|+....       ....+.+..+++.++++.++ ++|++||
T Consensus       104 ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  183 (205)
T 1gwn_A          104 LICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS  183 (205)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEee
Confidence            999999999999999 79999998887666668999999972100       00012344788999999988 6999999


Q ss_pred             CC-CCcCHHHHHHHHHHHHhc
Q 041042          231 AT-YNINVNKILKFITAKLFD  250 (268)
Q Consensus       231 a~-~~~~i~~~f~~l~~~i~~  250 (268)
                      |+ +|.||+++|+.|++.+++
T Consensus       184 Ak~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          184 ALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             TTTCHHHHHHHHHHHHHHHHH
T ss_pred             eccCCcCHHHHHHHHHHHHhh
Confidence            99 689999999999998864

>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=100.00  E-value=2.5e-34  Score=232.96  Aligned_cols=167  Identities=22%  Similarity=0.373  Sum_probs=150.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+++|||+|++.+..++..+++++|++
T Consensus        20 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   99 (191)
T 3dz8_A           20 FDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGF   99 (191)
T ss_dssp             EEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEE
T ss_pred             cCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEE
Confidence            56689999999999999999999999999888889999999888999999899999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++.++|+.+..|+..+.......+| +||+||+|+.     ..+.+..+++..+++.++++++++||++|.||+
T Consensus       100 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  174 (191)
T 3dz8_A          100 ILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDME-----EERVVPTEKGQLLAEQLGFDFFEASAKENISVR  174 (191)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-----cccccCHHHHHHHHHHcCCeEEEEECCCCCCHH
Confidence            9999999999999999999999888754445 6999999972     223445788999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|++.+.+.
T Consensus       175 ~l~~~l~~~i~~~  187 (191)
T 3dz8_A          175 QAFERLVDAICDK  187 (191)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988754

>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=100.00  E-value=3.8e-33  Score=220.79  Aligned_cols=164  Identities=15%  Similarity=0.213  Sum_probs=130.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc-chhhhhcCCcEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD-HLPVACKDSIAILF  161 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~-~~~~~~~~a~~vil  161 (268)
                      .+||+++|++|||||||+++|.+..+...+.++.+.++..+.+.+++..+.+.+|||+|++.+.. ++..+++.+|++++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~   81 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLI   81 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEE
Confidence            48999999999999999999998877766767777888888889999999999999999999876 77888999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||++++++|+.+..|+..+.....  +.|.+||+||+|+.     ..+.+..+++..+++.++++++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  156 (169)
T 3q85_A           82 VFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA-----RSREVSLEEGRHLAGTLSCKHIETSAALHHNTRE  156 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHH
T ss_pred             EEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchh-----hcccCCHHHHHHHHHHcCCcEEEecCccCCCHHH
Confidence            9999999999999999999988764  55667999999972     2344557889999999999999999999999999


Q ss_pred             HHHHHHHHHhcC
Q 041042          240 ILKFITAKLFDI  251 (268)
Q Consensus       240 ~f~~l~~~i~~~  251 (268)
                      +|+++++.+...
T Consensus       157 l~~~l~~~i~~~  168 (169)
T 3q85_A          157 LFEGAVRQIRLR  168 (169)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc
Confidence            999999987654

>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=100.00  E-value=1.1e-32  Score=220.34  Aligned_cols=168  Identities=21%  Similarity=0.366  Sum_probs=140.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      ....+||+++|.+|||||||+++|.++.+. ..+.+|++.++....+.+++..+.+++|||+|++.+..++..+++++|+
T Consensus         7 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   86 (180)
T 2g6b_A            7 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHA   86 (180)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCE
Confidence            456799999999999999999999999874 4678899999988888899999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      +|+|||+++..+|+.+..|+..+...... .|.+||+||+|+.   .  .+.+..+++..+++.++++++++||++|.|+
T Consensus        87 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~---~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (180)
T 2g6b_A           87 LLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSA---H--ERVVKREDGEKLAKEYGLPFMETSAKTGLNV  161 (180)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTT---S--CCCSCHHHHHHHHHHHTCCEEECCTTTCTTH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccC---c--ccccCHHHHHHHHHHcCCeEEEEeCCCCCCH
Confidence            99999999999999999999999887654 4447999999973   1  2334467888999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCc
Q 041042          238 NKILKFITAKLFDIP  252 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~  252 (268)
                      +++|++|.+.+.+..
T Consensus       162 ~~l~~~l~~~~~~~~  176 (180)
T 2g6b_A          162 DLAFTAIAKELKRRS  176 (180)
T ss_dssp             HHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999987654

>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=100.00  E-value=6.3e-33  Score=223.03  Aligned_cols=168  Identities=19%  Similarity=0.296  Sum_probs=150.2

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++++|++
T Consensus         7 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   86 (186)
T 2bme_A            7 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGA   86 (186)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEE
Confidence            45679999999999999999999999999888999999999888899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++.++|+.+..|+..+....... |++||+||+|+.     ..+.+..+++..+++..+++++++||++|.|++
T Consensus        87 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  161 (186)
T 2bme_A           87 LLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD-----ADREVTFLEASRFAQENELMFLETSALTGENVE  161 (186)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-----cccccCHHHHHHHHHHcCCEEEEecCCCCCCHH
Confidence            99999999999999999999988875444 447999999972     123344678889999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|+++++.+.+..
T Consensus       162 ~l~~~l~~~~~~~~  175 (186)
T 2bme_A          162 EAFVQCARKILNKI  175 (186)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999887643

>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=100.00  E-value=1.1e-32  Score=225.61  Aligned_cols=168  Identities=18%  Similarity=0.316  Sum_probs=150.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|+++|..++..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~v   84 (206)
T 2bcg_Y            5 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGI   84 (206)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEE
Confidence            45579999999999999999999999999888999999999888999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+.......+| +||+||+|+.   .  .+.+..+++..+++..+++++++||++|.||+
T Consensus        85 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~---~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  159 (206)
T 2bcg_Y           85 IIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK---D--KRVVEYDVAKEFADANKMPFLETSALDSTNVE  159 (206)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCT---T--TCCSCHHHHHHHHHHTTCCEEECCTTTCTTHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc---c--ccccCHHHHHHHHHHcCCeEEEEeCCCCCCHH
Confidence            9999999999999999999999887654444 7999999972   1  12344678889999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|++|.+.+.+..
T Consensus       160 ~l~~~l~~~i~~~~  173 (206)
T 2bcg_Y          160 DAFLTMARQIKESM  173 (206)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999887654

>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=100.00  E-value=4.4e-33  Score=222.60  Aligned_cols=162  Identities=20%  Similarity=0.301  Sum_probs=136.6

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|.++.+.. +.+|++..+ .+.+.+++..+.+++|||+|+++     ..|++++|++|
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~i   77 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVI   77 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEE
Confidence            457999999999999999999999999876 788888554 57788899999999999999987     56889999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhC----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh-CCeEEEEcCCCCc
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCN----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-NATLFFSSATYNI  235 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~  235 (268)
                      +|||++++++|+.+..|++.+....    ++.|++|||||+|+.   ....+.+..+++.++++.. +++++++||++|.
T Consensus        78 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~---~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~  154 (178)
T 2iwr_A           78 FVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRIS---ASSPRVVGDARARALXADMKRCSYYETXATYGL  154 (178)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCB---TTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTB
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc---ccccCcCCHHHHHHHHHhhcCCeEEEEeccccC
Confidence            9999999999999999877665542    244557999999962   1223345578888999887 7999999999999


Q ss_pred             CHHHHHHHHHHHHhcCc
Q 041042          236 NVNKILKFITAKLFDIP  252 (268)
Q Consensus       236 ~i~~~f~~l~~~i~~~~  252 (268)
                      |++++|++|++.+.+..
T Consensus       155 ~i~~lf~~l~~~~~~~~  171 (178)
T 2iwr_A          155 NVDRVFQEVAQKVVTLR  171 (178)
T ss_dssp             THHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHH
Confidence            99999999999887654

>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=100.00  E-value=2.5e-33  Score=228.96  Aligned_cols=168  Identities=19%  Similarity=0.302  Sum_probs=139.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.++.+...+.+|++.++....+.+++..+.+++|||+|++.+..++..+++.+|++
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  101 (200)
T 2o52_A           22 SDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGA  101 (200)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEE
Confidence            45679999999999999999999999999888899999999888899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+...... .|++||+||+|+.     ..+.+..+++..+++..++++++|||++|.||+
T Consensus       102 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~  176 (200)
T 2o52_A          102 LLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLD-----PEREVTFLEASRFAQENELMFLETSALTGENVE  176 (200)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcc-----cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            9999999999999999999999887544 4447999999962     123344678889999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|++|++.+.+..
T Consensus       177 ~l~~~l~~~i~~~~  190 (200)
T 2o52_A          177 EAFLKCARTILNKI  190 (200)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999887653

>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=100.00  E-value=4.5e-33  Score=225.83  Aligned_cols=168  Identities=24%  Similarity=0.435  Sum_probs=148.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|+|.++....+.+++..+.+++|||+|++++..++..+++.+|++
T Consensus        20 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   99 (192)
T 2fg5_A           20 AIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAA   99 (192)
T ss_dssp             -CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             cCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEE
Confidence            45679999999999999999999999998888999999999888888888999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++.++|+.+..|+..+........| +||+||+|+.     ..+.+..++++++++..+++++++||++|.|++
T Consensus       100 ilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  174 (192)
T 2fg5_A          100 VIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLS-----DIREVPLKDAKEYAESIGAIVVETSAKNAINIE  174 (192)
T ss_dssp             EEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG-----GGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccc-----cccccCHHHHHHHHHHcCCEEEEEeCCCCcCHH
Confidence            9999999999999999999999888654445 6999999972     123345788999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|++|.+.+.+.+
T Consensus       175 ~l~~~l~~~i~~~~  188 (192)
T 2fg5_A          175 ELFQGISRQIPPLD  188 (192)
T ss_dssp             HHHHHHHHTCC---
T ss_pred             HHHHHHHHHHHhhC
Confidence            99999999876654

>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=100.00  E-value=3.6e-33  Score=224.83  Aligned_cols=170  Identities=25%  Similarity=0.307  Sum_probs=145.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++.++ .+.+.+++..+.+++|||+|++.|..++..+++++|++
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   82 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   82 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEE
Confidence            34579999999999999999999999999888899988776 45677888899999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHH-HHHHHHHHHhCCCCceEEEEeCCCCCCCC-------CccchhchHHHHHHHHHHhC-CeEEEEc
Q 041042          160 LFMFDLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFDDFIQL-------PIDLQWTIASQARAYAKALN-ATLFFSS  230 (268)
Q Consensus       160 ilv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~-------~~~~~~~~~~~~~~~~~~~~-~~~~~~S  230 (268)
                      |+|||++++++|+.+ ..|+..+....++.|.+|||||+|+....       ....+.+..+++.++++.++ ++|++||
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  162 (184)
T 1m7b_A           83 LICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS  162 (184)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECB
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEee
Confidence            999999999999999 78999998887766778999999972100       00012345788999999988 7999999


Q ss_pred             CC-CCcCHHHHHHHHHHHHhc
Q 041042          231 AT-YNINVNKILKFITAKLFD  250 (268)
Q Consensus       231 a~-~~~~i~~~f~~l~~~i~~  250 (268)
                      |+ +|.||+++|+.+++.+++
T Consensus       163 a~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          163 ALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             TTTBHHHHHHHHHHHHHHHHT
T ss_pred             ecCCCcCHHHHHHHHHHHHhc
Confidence            99 689999999999998875

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=2.5e-33  Score=228.97  Aligned_cols=170  Identities=17%  Similarity=0.175  Sum_probs=142.4

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+++|||+|++.+..++..+++.+|++
T Consensus        21 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   99 (201)
T 3oes_A           21 LVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGY   99 (201)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEE
T ss_pred             CCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEE
Confidence            45679999999999999999999999999888999988777 56777788889999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+|||+++.++|+.+..|+..+....  .+.|.+||+||+|+.     ..+.+..+++..+++.++++++++||++|.|+
T Consensus       100 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v  174 (201)
T 3oes_A          100 VLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLS-----PEREVQAVEGKKLAESWGATFMESSARENQLT  174 (201)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEECCTTCHHHH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCc-----cccccCHHHHHHHHHHhCCeEEEEeCCCCCCH
Confidence            99999999999999999999997763  344557999999972     22344578889999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCccch
Q 041042          238 NKILKFITAKLFDIPWTL  255 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~~~~  255 (268)
                      +++|++|++.+.+.....
T Consensus       175 ~~l~~~l~~~i~~~~~~~  192 (201)
T 3oes_A          175 QGIFTKVIQEIARVENSY  192 (201)
T ss_dssp             HHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHhhhhhh
Confidence            999999999998876543

>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=100.00  E-value=1.4e-32  Score=224.52  Aligned_cols=167  Identities=24%  Similarity=0.382  Sum_probs=149.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|+|.++..+.+.+++..+.+++|||+|++.+..++..+++++|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   84 (203)
T 1zbd_A            5 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGF   84 (203)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEE
Confidence            34579999999999999999999999999888999999999888888999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+...... .|++||+||+|+.     ..+.+..+++..+++.++++++++||++|.|++
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  159 (203)
T 1zbd_A           85 ILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDME-----DERVVSSERGRQLADHLGFEFFEASAKDNINVK  159 (203)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCT-----TSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccC-----cccccCHHHHHHHHHHCCCeEEEEECCCCCCHH
Confidence            9999999999999999999999887644 4447999999972     123344778899999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|.+.+.+.
T Consensus       160 ~l~~~l~~~i~~~  172 (203)
T 1zbd_A          160 QTFERLVDVICEK  172 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999888654

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=100.00  E-value=5.3e-33  Score=228.62  Aligned_cols=170  Identities=19%  Similarity=0.312  Sum_probs=145.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+++|||+|+++|..++..+++++|++|
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   85 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFV   85 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEE
Confidence            4579999999999999999999999999888899998665 466778888999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCccch-------hchHHHHHHHHHHhCC-eEEEEcC
Q 041042          161 FMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQ-------WTIASQARAYAKALNA-TLFFSSA  231 (268)
Q Consensus       161 lv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~-------~~~~~~~~~~~~~~~~-~~~~~Sa  231 (268)
                      +|||+++.++|+.+. .|+..+..+.++.|++||+||+|+.    +...       .+..+++.++++.+++ +|++|||
T Consensus        86 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~----~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  161 (212)
T 2j0v_A           86 LAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLDLR----DDKGYLADHTNVITSTQGEELRKQIGAAAYIECSS  161 (212)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHH----TCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeCHHhh----hCccccccccCCCCHHHHHHHHHHcCCceEEEccC
Confidence            999999999999997 8999999887777778999999962    1111       1247788899999996 9999999


Q ss_pred             CCCcCHHHHHHHHHHHHhcCccch
Q 041042          232 TYNINVNKILKFITAKLFDIPWTL  255 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i~~~~~~~  255 (268)
                      ++|.||+++|++|++.+.+.....
T Consensus       162 ~~g~gi~~l~~~l~~~~~~~~~~~  185 (212)
T 2j0v_A          162 KTQQNVKAVFDTAIKVVLQPPRRK  185 (212)
T ss_dssp             TTCTTHHHHHHHHHHHHHCC----
T ss_pred             CCCCCHHHHHHHHHHHHhhhhhhc
Confidence            999999999999999998876443

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=100.00  E-value=9.1e-33  Score=229.39  Aligned_cols=170  Identities=19%  Similarity=0.372  Sum_probs=142.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.++.+...+.+|++.++....+.+++..+.+++|||+|+++|..++..+++.+|++
T Consensus        10 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~v   89 (223)
T 3cpj_B           10 YDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGA   89 (223)
T ss_dssp             CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEE
T ss_pred             CCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEE
Confidence            45679999999999999999999999999888889999999888899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+.......+| +||+||+|+.     ..+.+..+++..+++..+++++++||++|.||+
T Consensus        90 ilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  164 (223)
T 3cpj_B           90 LIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLA-----HLRAVPTEESKTFAQENQLLFTETSALNSENVD  164 (223)
T ss_dssp             EEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGG-----GGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccc-----cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            9999999999999999999999887654444 6999999972     122344678889999999999999999999999


Q ss_pred             HHHHHHHHHHhcCccc
Q 041042          239 KILKFITAKLFDIPWT  254 (268)
Q Consensus       239 ~~f~~l~~~i~~~~~~  254 (268)
                      ++|++|++.+.+....
T Consensus       165 ~l~~~l~~~i~~~~~~  180 (223)
T 3cpj_B          165 KAFEELINTIYQKVSK  180 (223)
T ss_dssp             HHHHHHHHHHTTCC--
T ss_pred             HHHHHHHHHHHHHhhh
Confidence            9999999999877643

>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=100.00  E-value=1e-32  Score=221.51  Aligned_cols=169  Identities=22%  Similarity=0.306  Sum_probs=148.1

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      +..+||+++|.+|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+++|||+|++.|..++..+++.+|++|
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   81 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEE
Confidence            4579999999999999999999999999888888887655 466788999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCcc----------chhchHHHHHHHHHHhCC-eEEE
Q 041042          161 FMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPID----------LQWTIASQARAYAKALNA-TLFF  228 (268)
Q Consensus       161 lv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~----------~~~~~~~~~~~~~~~~~~-~~~~  228 (268)
                      +|||+++..+|+.+. .|+..+....++.|++||+||+|+.   ...          .+.+..+++..+++.+++ ++++
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~---~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  158 (186)
T 1mh1_A           82 ICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLR---DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLE  158 (186)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHH---TCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEE
T ss_pred             EEEECCChhhHHHHHHHHHHHHHHhCCCCCEEEEeEccccc---ccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEE
Confidence            999999999999997 7999998887766778999999972   211          023346788899999997 9999


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhcCcc
Q 041042          229 SSATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      |||++|.|++++|++|.+.+.+.++
T Consensus       159 ~Sa~~g~gi~~l~~~l~~~~~~~~~  183 (186)
T 1mh1_A          159 CSALTQRGLKTVFDEAIRAVLCPPP  183 (186)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHSCCCC
T ss_pred             ecCCCccCHHHHHHHHHHHHhcccc
Confidence            9999999999999999999987764

>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=100.00  E-value=8.8e-33  Score=220.33  Aligned_cols=166  Identities=22%  Similarity=0.419  Sum_probs=147.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++++|++
T Consensus        11 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   90 (179)
T 2y8e_A           11 PLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVA   90 (179)
T ss_dssp             -CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEE
Confidence            45579999999999999999999999999888999999999888999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+..... +.|+++|+||+|+.     ..+.+..+++..+++..+++++++||++|.|++
T Consensus        91 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  165 (179)
T 2y8e_A           91 VVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLS-----DKRQVSTEEGERKAKELNVMFIETSAKAGYNVK  165 (179)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGG-----GGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCccc-----ccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHH
Confidence            999999999999999999999887654 44447999999972     123344778888999999999999999999999


Q ss_pred             HHHHHHHHHHhc
Q 041042          239 KILKFITAKLFD  250 (268)
Q Consensus       239 ~~f~~l~~~i~~  250 (268)
                      ++|++|.+.+.+
T Consensus       166 ~l~~~l~~~~~~  177 (179)
T 2y8e_A          166 QLFRRVAAALPG  177 (179)
T ss_dssp             HHHHHHHHTCC-
T ss_pred             HHHHHHHHHHhh
Confidence            999999987654

>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=100.00  E-value=8.6e-33  Score=223.16  Aligned_cols=169  Identities=21%  Similarity=0.329  Sum_probs=148.7

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeE-EEEEEECCe---------EEEEEEEeCCCccccccc
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMM-DKTLLVRGA---------RISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~---------~~~l~i~Dt~G~~~~~~~  148 (268)
                      +....+||+|+|++|||||||+++|.++.+...+.+|++.++. .+.+.+++.         .+.+++|||+|++.+..+
T Consensus         7 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   86 (195)
T 3bc1_A            7 DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSL   86 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHH
T ss_pred             ccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHH
Confidence            3566799999999999999999999999998888999999887 667777766         789999999999999999


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeE
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATL  226 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  226 (268)
                      +..+++++|++|+|||+++..+++.+..|+..+....  .+.|++||+||+|+.     ..+.+..+++.++++.+++++
T Consensus        87 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~  161 (195)
T 3bc1_A           87 TTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLE-----DQRAVKEEEARELAEKYGIPY  161 (195)
T ss_dssp             HHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCCE
T ss_pred             HHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-----cccccCHHHHHHHHHHcCCCE
Confidence            9999999999999999999999999999999998876  355567999999972     122344788899999999999


Q ss_pred             EEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          227 FFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +++||++|.|++++|++|.+.+.+..
T Consensus       162 ~~~Sa~~~~~v~~l~~~l~~~~~~~~  187 (195)
T 3bc1_A          162 FETSAANGTNISHAIEMLLDLIMKRM  187 (195)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999887643

>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=100.00  E-value=2.7e-33  Score=228.44  Aligned_cols=171  Identities=20%  Similarity=0.301  Sum_probs=137.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.++.+...+.+|+|.++..+.+.+++..+.+++|||+|++.+..++..+++.+|++
T Consensus        25 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~i  104 (199)
T 2p5s_A           25 SQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGV  104 (199)
T ss_dssp             ---CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEE
T ss_pred             cCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEE
Confidence            45569999999999999999999999998888889999999888999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCC-ccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLP-IDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+|||+++..+|+.+..|+..+..... +.|++||+||+|+..... +..+.+..+++..+++..+++++++||++|.||
T Consensus       105 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gv  184 (199)
T 2p5s_A          105 LLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNI  184 (199)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCTTH
T ss_pred             EEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCH
Confidence            999999999999999999999988754 445579999999621000 012334477889999999999999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 041042          238 NKILKFITAKLFD  250 (268)
Q Consensus       238 ~~~f~~l~~~i~~  250 (268)
                      +++|++|++.+.+
T Consensus       185 ~el~~~l~~~i~~  197 (199)
T 2p5s_A          185 VEAVLHLAREVKK  197 (199)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998864

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=100.00  E-value=1.6e-32  Score=223.85  Aligned_cols=172  Identities=19%  Similarity=0.238  Sum_probs=139.4

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+++|||+|+++|..++..+++++|++
T Consensus        17 ~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   95 (201)
T 2q3h_A           17 EGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIF   95 (201)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEE
Confidence            55579999999999999999999999998888889988655 46778899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCC-------ccchhchHHHHHHHHHHhCC-eEEEEc
Q 041042          160 LFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLP-------IDLQWTIASQARAYAKALNA-TLFFSS  230 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~-------~~~~~~~~~~~~~~~~~~~~-~~~~~S  230 (268)
                      |+|||+++.++|+.+. .|+..+....++.|++||+||+|+.....       ...+.+..+++..+++.+++ ++++||
T Consensus        96 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  175 (201)
T 2q3h_A           96 LLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECS  175 (201)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCSSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEEe
Confidence            9999999999999997 79999998877777789999999721100       00123457888999999997 999999


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCc
Q 041042          231 ATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      |++|.||+++|++|++.+.+.+
T Consensus       176 a~~g~gi~~l~~~l~~~~~~~~  197 (201)
T 2q3h_A          176 ALTQKNLKEVFDAAIVAGIQYS  197 (201)
T ss_dssp             TTTCTTHHHHHHHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHhccc
Confidence            9999999999999999887553

>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=100.00  E-value=1.5e-33  Score=232.80  Aligned_cols=168  Identities=24%  Similarity=0.369  Sum_probs=147.2

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCe----------EEEEEEEeCCCccccccch
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGA----------RISYSIWEVTGDAKAQDHL  149 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~----------~~~l~i~Dt~G~~~~~~~~  149 (268)
                      ....+||+|+|++|||||||+++|.++.+...+.+|++.++..+.+.+++.          .+.+++|||+|++.|..++
T Consensus        22 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~  101 (217)
T 2f7s_A           22 YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLT  101 (217)
T ss_dssp             CSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHH
T ss_pred             cceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHH
Confidence            566799999999999999999999999998888889998888888888776          7899999999999999999


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEE
Q 041042          150 PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLF  227 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (268)
                      ..+++.+|++|+|||+++..+|+.+..|+..+....  .+.|++||+||+|+.     ..+.+..+++.++++.++++++
T Consensus       102 ~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~  176 (217)
T 2f7s_A          102 TAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLP-----DQREVNERQARELADKYGIPYF  176 (217)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCCEE
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccc-----cccccCHHHHHHHHHHCCCcEE
Confidence            999999999999999999999999999998886654  344557999999972     1233447889999999999999


Q ss_pred             EEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          228 FSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       228 ~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +|||++|.||+++|++|.+.+.+..
T Consensus       177 ~~Sa~~g~gi~~l~~~l~~~i~~~~  201 (217)
T 2f7s_A          177 ETSAATGQNVEKAVETLLDLIMKRM  201 (217)
T ss_dssp             EEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999887653

>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=100.00  E-value=1.5e-32  Score=216.56  Aligned_cols=162  Identities=19%  Similarity=0.225  Sum_probs=142.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|.++.+...+.+|++..+. +.+.+++..+.+++|||+|++.+..++..+++++|++++
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   80 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            4689999999999999999999999998888899886654 667788889999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh-CCeEEEEcCCCCcCHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-NATLFFSSATYNINVN  238 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i~  238 (268)
                      |||++++++|+.+..|+..+...  ..+.|+++|+||+|+.     ..+.+..+++..+++.+ +++++++||++|.|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  155 (167)
T 1c1y_A           81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE-----DERVVGKEQGQNLARQWCNCAFLESSAKSKINVN  155 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECcccc-----ccccCCHHHHHHHHHHccCCcEEEecCCCCCCHH
Confidence            99999999999999999998775  3355667999999972     22334478888999988 8999999999999999


Q ss_pred             HHHHHHHHHHh
Q 041042          239 KILKFITAKLF  249 (268)
Q Consensus       239 ~~f~~l~~~i~  249 (268)
                      ++|++|.+.+.
T Consensus       156 ~l~~~l~~~i~  166 (167)
T 1c1y_A          156 EIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999998774

>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=100.00  E-value=1.7e-32  Score=219.11  Aligned_cols=167  Identities=16%  Similarity=0.209  Sum_probs=146.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|.+|||||||+++|.++.+...+.+|++.++. ..+.+++..+.+.+|||+|++++..++..+++.+|++
T Consensus         6 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   84 (181)
T 2fn4_A            6 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGF   84 (181)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCEE
Confidence            445799999999999999999999999998889999988776 7778899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHh-CC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKC-NQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~-~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      ++|||+++.++|+.+..|+..+... .. +.|++||+||+|+.     ..+.+..+++..++...+++++++||++|.|+
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv  159 (181)
T 2fn4_A           85 LLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLE-----SQRQVPRSEASAFGASHHVAYFEASAKLRLNV  159 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEECBTTTTBSH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-----cccccCHHHHHHHHHHcCCeEEEecCCCCCCH
Confidence            9999999999999999999988443 33 45557999999972     22334477888999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCc
Q 041042          238 NKILKFITAKLFDIP  252 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~  252 (268)
                      +++|++|.+.+.+..
T Consensus       160 ~~l~~~l~~~~~~~~  174 (181)
T 2fn4_A          160 DEAFEQLVRAVRKYQ  174 (181)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999887544

>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=100.00  E-value=2.4e-32  Score=217.16  Aligned_cols=164  Identities=20%  Similarity=0.256  Sum_probs=132.8

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc--cccchhhhhcCCcEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK--AQDHLPVACKDSIAI  159 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~~a~~v  159 (268)
                      ..+||+++|++|||||||+++|.++.+... .++.|.++..+.+.+++..+.+++|||+|++.  +..+...+++.+|++
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~   81 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDL-HEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAY   81 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC------CCCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEE
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCccc-cCccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEE
Confidence            468999999999999999999999887544 44678888888889999999999999999988  567778899999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      ++|||++++++|+.+..|+..+....  .+.|.+||+||+|+.     ..+.+..+++..++..+++++++|||++|.|+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi  156 (175)
T 2nzj_A           82 VIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLA-----RCREVSVEEGRACAVVFDCKFIETSATLQHNV  156 (175)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCT-----TTCCSCHHHHHHHHHHHTSEEEECBTTTTBSH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhc-----cccccCHHHHHHHHHHcCCeEEEEecCCCCCH
Confidence            99999999999999999999888753  345567999999973     11234467788899999999999999999999


Q ss_pred             HHHHHHHHHHHhcC
Q 041042          238 NKILKFITAKLFDI  251 (268)
Q Consensus       238 ~~~f~~l~~~i~~~  251 (268)
                      +++|++|++.+...
T Consensus       157 ~~l~~~l~~~~~~~  170 (175)
T 2nzj_A          157 AELFEGVVRQLRLR  170 (175)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988643

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=100.00  E-value=3.4e-32  Score=221.19  Aligned_cols=163  Identities=19%  Similarity=0.374  Sum_probs=144.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeE-----------------------------
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGAR-----------------------------  131 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~-----------------------------  131 (268)
                      ...+||+|+|.+|||||||+++|++..+...+.+|++.++....+.+++..                             
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHN   84 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccccccc
Confidence            346999999999999999999999999988899999999988888877765                             


Q ss_pred             --------EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCC
Q 041042          132 --------ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL  203 (268)
Q Consensus       132 --------~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~  203 (268)
                              +.+.+|||+|++.+..++..+++.+|++|+|||+++..+++.+..|+..+..... .|+++|+||+|+    
T Consensus        85 ~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~-~piilv~NK~D~----  159 (208)
T 3clv_A           85 NYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN-YIIILVANKIDK----  159 (208)
T ss_dssp             CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC-CEEEEEEECTTC----
T ss_pred             cccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC-CcEEEEEECCCc----
Confidence                    8899999999999999999999999999999999999999999999999988764 555799999994    


Q ss_pred             CccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                        ....+..+++.++++..+++++++||++|.|++++|++|.+.+.+
T Consensus       160 --~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  204 (208)
T 3clv_A          160 --NKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYK  204 (208)
T ss_dssp             --C-CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHH
T ss_pred             --ccccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHH
Confidence              223445788899999999999999999999999999999988764

>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=100.00  E-value=1.9e-32  Score=215.76  Aligned_cols=163  Identities=17%  Similarity=0.225  Sum_probs=140.9

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|.+|||||||+++|.++.+...+.+|++..+. ..+.+++..+.+.+|||+|++++..++..+++.+|++++
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEEE-EEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEE
Confidence            4699999999999999999999999988888888876653 566788999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||+++.++|+.+..|+..+.....  +.|.++|+||+|+.     ..+.+..+++..+++.++++++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  156 (168)
T 1u8z_A           82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-----DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDK  156 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGG-----GGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECcccc-----ccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHH
Confidence            9999999999999999999988754  45567999999962     1223447888999999999999999999999999


Q ss_pred             HHHHHHHHHhc
Q 041042          240 ILKFITAKLFD  250 (268)
Q Consensus       240 ~f~~l~~~i~~  250 (268)
                      +|++|.+.+.+
T Consensus       157 l~~~l~~~i~~  167 (168)
T 1u8z_A          157 VFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999998764

>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=100.00  E-value=4.6e-32  Score=221.53  Aligned_cols=166  Identities=20%  Similarity=0.305  Sum_probs=146.1

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|.+|||||||+++|.++.+...+.+|++.++. ..+.+++..+.+++|||+|+++|..++..+++++|++|
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEE
Confidence            45799999999999999999999999998888999888775 45778899999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc----------hhchHHHHHHHHHHhCC-eEEE
Q 041042          161 FMFDLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL----------QWTIASQARAYAKALNA-TLFF  228 (268)
Q Consensus       161 lv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~----------~~~~~~~~~~~~~~~~~-~~~~  228 (268)
                      +|||+++.++|+.+ ..|+..+....++.|++||+||+|+.   ....          +.+..+++..+++..++ ++++
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~---~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  178 (201)
T 2gco_A          102 MCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLR---QDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLE  178 (201)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGT---TCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhh---cCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEE
Confidence            99999999999999 68999998887777778999999973   2111          22446788999999998 8999


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhc
Q 041042          229 SSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      |||++|.||+++|++|.+.+++
T Consensus       179 ~SA~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          179 CSAKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHC
T ss_pred             eeCCCCCCHHHHHHHHHHHHhc
Confidence            9999999999999999998765

>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=100.00  E-value=2.8e-32  Score=220.27  Aligned_cols=165  Identities=13%  Similarity=0.194  Sum_probs=134.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      .+..+||+++|.+|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+.+|||+|++.+..++..+++.+|++
T Consensus        18 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   96 (190)
T 3con_A           18 GMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGF   96 (190)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC-----------CTTCSEE
T ss_pred             ccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEE
Confidence            45679999999999999999999999988888888877555 46777889999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      ++|||+++..+|+.+..|+..+.....  +.|.+||+||+|+.      ......+++.++++.++++++++||++|.|+
T Consensus        97 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  170 (190)
T 3con_A           97 LCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLP------TRTVDTKQAHELAKSYGIPFIETSAKTRQGV  170 (190)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCS------CCCSCHHHHHHHHHHHTCCEEECCTTTCTTH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCC------cccCCHHHHHHHHHHcCCeEEEEeCCCCCCH
Confidence            999999999999999999999887643  45567999999972      1334578889999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC
Q 041042          238 NKILKFITAKLFDI  251 (268)
Q Consensus       238 ~~~f~~l~~~i~~~  251 (268)
                      +++|++|.+.+.+.
T Consensus       171 ~~l~~~l~~~~~~~  184 (190)
T 3con_A          171 EDAFYTLVREIRQY  184 (190)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999988754

>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=100.00  E-value=1e-32  Score=225.70  Aligned_cols=168  Identities=23%  Similarity=0.337  Sum_probs=147.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++++|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCC   84 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEE
Confidence            44579999999999999999999999999888999999999888888999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC-----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-HhCCeEEEEcCCC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN-----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-ALNATLFFSSATY  233 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~-----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~  233 (268)
                      |+|||+++..+|+.+..|+..+....     .+.|++||+||+|+.      ...+..+++..+++ ..+++++++||++
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  158 (207)
T 1vg8_A           85 VLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE------NRQVATKRAQAWCYSKNNIPYFETSAKE  158 (207)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS------CCCSCHHHHHHHHHHTTSCCEEECBTTT
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc------ccccCHHHHHHHHHhcCCceEEEEeCCC
Confidence            99999999999999999999887764     245567999999972      23344677888887 6789999999999


Q ss_pred             CcCHHHHHHHHHHHHhcCcc
Q 041042          234 NINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~~~  253 (268)
                      |.|++++|++|++.+.+.+.
T Consensus       159 g~gi~~l~~~l~~~~~~~~~  178 (207)
T 1vg8_A          159 AINVEQAFQTIARNALKQET  178 (207)
T ss_dssp             TBSHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHhcc
Confidence            99999999999999887653

>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=100.00  E-value=2.4e-32  Score=223.12  Aligned_cols=168  Identities=17%  Similarity=0.230  Sum_probs=147.4

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      +....+||+|+|.+|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+.+|||+|++.+..++..+++.+|+
T Consensus        10 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   88 (206)
T 2bov_A           10 NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEG   88 (206)
T ss_dssp             -CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCE
Confidence            355679999999999999999999999998888888888665 4667789999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcC
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNIN  236 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  236 (268)
                      +++|||+++.++|+.+..|+..+.....  +.|++||+||+|+.     ..+.+..+++..+++.++++++++||++|.|
T Consensus        89 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g  163 (206)
T 2bov_A           89 FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-----DKRQVSVEEAKNRAEQWNVNYVETSAKTRAN  163 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEEECTTTCTT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCcc-----ccccccHHHHHHHHHHhCCeEEEEeCCCCCC
Confidence            9999999999999999999999988754  55667999999972     1223457888999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCc
Q 041042          237 VNKILKFITAKLFDIP  252 (268)
Q Consensus       237 i~~~f~~l~~~i~~~~  252 (268)
                      ++++|++|++.+.+..
T Consensus       164 i~~l~~~l~~~i~~~~  179 (206)
T 2bov_A          164 VDKVFFDLMREIRARK  179 (206)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcc
Confidence            9999999999887653

>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=100.00  E-value=1.4e-32  Score=220.70  Aligned_cols=167  Identities=17%  Similarity=0.227  Sum_probs=145.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+.+|||+|++.+..++..+++.+|++
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   93 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGF   93 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEE
Confidence            45679999999999999999999999998888888887665 45677889999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      ++|||+++.++|+.+..|+..+.....  +.|++||+||+|+.     ..+.+..+++.++++.++++++++||++|.|+
T Consensus        94 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  168 (187)
T 2a9k_A           94 LCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-----DKRQVSVEEAKNRAEQWNVNYVETSAKTRANV  168 (187)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc-----ccCccCHHHHHHHHHHcCCeEEEeCCCCCCCH
Confidence            999999999999999999999888754  55667999999972     12234478889999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCc
Q 041042          238 NKILKFITAKLFDIP  252 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~  252 (268)
                      +++|++|.+.+.+.+
T Consensus       169 ~~l~~~l~~~i~~~~  183 (187)
T 2a9k_A          169 DKVFFDLMREIRARK  183 (187)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999887543

>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=100.00  E-value=4.8e-32  Score=218.08  Aligned_cols=170  Identities=12%  Similarity=0.203  Sum_probs=145.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|.+|||||||+++|.++.+...+.+|++ +.....+.+++..+.+++|||+|++.+..++..+++.+|++++
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   81 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   81 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEE
Confidence            469999999999999999999999998888888875 4445777889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||+++..+|+.+..|+..+....  .+.|.+||+||+|+.      ......+++..+++.++++++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~  155 (189)
T 4dsu_A           82 VFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP------SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDD  155 (189)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSS------SCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCc------ccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHH
Confidence            999999999999999999998864  345557999999972      234557888999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccchhcc
Q 041042          240 ILKFITAKLFDIPWTLERN  258 (268)
Q Consensus       240 ~f~~l~~~i~~~~~~~~~~  258 (268)
                      +|++|.+.+.+.......+
T Consensus       156 l~~~l~~~~~~~~~~~~~~  174 (189)
T 4dsu_A          156 AFYTLVREIRKHKEKMSKD  174 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhhhcccc
Confidence            9999999988776544443

>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=100.00  E-value=4.5e-32  Score=222.76  Aligned_cols=166  Identities=22%  Similarity=0.401  Sum_probs=147.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.+..+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++.+|++
T Consensus        17 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   96 (213)
T 3cph_A           17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGI   96 (213)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEE
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEE
Confidence            44569999999999999999999999999888999999999888899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++..+|+.+..|+..+....... |++||+||+|+      ..+.+..+++..+++.++++++++||++|.||+
T Consensus        97 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  170 (213)
T 3cph_A           97 ILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM------ETRVVTADQGEALAKELGIPFIESSAKNDDNVN  170 (213)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTC------SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC------cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            99999999999999999999998876544 44799999996      223345678888999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|.+.+.+.
T Consensus       171 ~l~~~l~~~~~~~  183 (213)
T 3cph_A          171 EIFFTLAKLIQEK  183 (213)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999887654

>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=100.00  E-value=2.4e-32  Score=225.58  Aligned_cols=169  Identities=21%  Similarity=0.312  Sum_probs=126.1

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+++|||+|++.|..++..+++++|++|
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  110 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLL  110 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEE
Confidence            4469999999999999999999999998888888887655 466788999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCccc----------hhchHHHHHHHHHHhCC-eEEE
Q 041042          161 FMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL----------QWTIASQARAYAKALNA-TLFF  228 (268)
Q Consensus       161 lv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~----------~~~~~~~~~~~~~~~~~-~~~~  228 (268)
                      +|||+++..+|+.+. .|+..+....++.|+|||+||+|+.   ....          +.+..+++..+++..++ ++++
T Consensus       111 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~---~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  187 (214)
T 2j1l_A          111 LCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLR---KDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLE  187 (214)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECGGGG---SCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEE
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhh---ccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEE
Confidence            999999999999997 7999998887777778999999972   2110          13346788999999998 9999


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhcCcc
Q 041042          229 SSATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      |||++|.||+++|++|++.+.+.+.
T Consensus       188 ~SA~~g~gi~el~~~l~~~~~~~~~  212 (214)
T 2j1l_A          188 CSARLHDNVHAVFQEAAEVALSSRG  212 (214)
T ss_dssp             CBTTTTBSHHHHHHHHHHHHHHC--
T ss_pred             ecCCCCCCHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999887653

>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=100.00  E-value=2.2e-32  Score=215.75  Aligned_cols=161  Identities=17%  Similarity=0.242  Sum_probs=119.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||+++|.+..+. ...++.+.++ ...+.+++..+.+++|||+|++.+..++..+++.+|++++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   79 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------------CCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccce-EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEE
Confidence            589999999999999999999877653 4455666555 46778899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ||++++++|+.+..|+..+....  .+.|.++|+||+|+.     ..+.+..+++..++...+++++++||++|.|++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  154 (166)
T 3q72_A           80 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV-----RSREVSVDEGRACAVVFDCKFIETSAALHHNVQAL  154 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCC-----SSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccc-----cccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHH
Confidence            99999999999999999988763  345567999999973     22345578889999999999999999999999999


Q ss_pred             HHHHHHHHhc
Q 041042          241 LKFITAKLFD  250 (268)
Q Consensus       241 f~~l~~~i~~  250 (268)
                      |++|.+.+.+
T Consensus       155 ~~~l~~~~~~  164 (166)
T 3q72_A          155 FEGVVRQIRL  164 (166)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998764

>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=100.00  E-value=1.6e-32  Score=219.47  Aligned_cols=168  Identities=23%  Similarity=0.360  Sum_probs=133.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC-CeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      ....+||+++|.+|||||||+++|.++.+...+.+|++.++....+.++ +..+.+++|||+|++.+..++..+++.+|+
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   84 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADC   84 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCE
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCE
Confidence            3457999999999999999999999999988899999999888888887 667899999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhC-----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-HhCCeEEEEcCC
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCN-----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-ALNATLFFSSAT  232 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~-----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~  232 (268)
                      +|+|||+++..+|+.+..|+..+....     .+.|.+||+||+|+    .+..+.+..+++.++++ ..+++++++||+
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl----~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~  160 (182)
T 1ky3_A           85 CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDA----EESKKIVSEKSAQELAKSLGDIPLFLTSAK  160 (182)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTS----CGGGCCSCHHHHHHHHHHTTSCCEEEEBTT
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCcc----ccccccCCHHHHHHHHHhcCCCeEEEEecC
Confidence            999999999999999999999987764     34555799999996    22223345778888888 567899999999


Q ss_pred             CCcCHHHHHHHHHHHHhcC
Q 041042          233 YNINVNKILKFITAKLFDI  251 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~~  251 (268)
                      +|.|++++|++|.+.+.+.
T Consensus       161 ~~~gi~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          161 NAINVDTAFEEIARSALQQ  179 (182)
T ss_dssp             TTBSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHh
Confidence            9999999999999988654

>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=100.00  E-value=4e-32  Score=213.73  Aligned_cols=162  Identities=16%  Similarity=0.207  Sum_probs=142.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|.++.+...+.+|++..+ .+.+.+++..+.+++|||+|++.+..++..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~   80 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEE
Confidence            368999999999999999999999998888888887544 5778889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||+++..+|+.+..|+..+....  .+.|.++|+||+|+.     ..+.+..+++..+++.++++++++||++|.|+++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  155 (167)
T 1kao_A           81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLE-----SEREVSSSEGRALAEEWGCPFMETSAKSKTMVDE  155 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGG-----GGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCccc-----ccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHH
Confidence            999999999999999999987764  345557999999962     2233457788899999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 041042          240 ILKFITAKLF  249 (268)
Q Consensus       240 ~f~~l~~~i~  249 (268)
                      +|++|.+.+.
T Consensus       156 l~~~l~~~~~  165 (167)
T 1kao_A          156 LFAEIVRQMN  165 (167)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998774

>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=100.00  E-value=5.4e-33  Score=230.21  Aligned_cols=168  Identities=23%  Similarity=0.329  Sum_probs=150.3

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      .....+||+++|.+|||||||+++|+.+.+...+.+|.|.++....+.+++..+.+++|||+|++.+..++..+++++|+
T Consensus        11 ~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   90 (221)
T 3gj0_A           11 EPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQC   90 (221)
T ss_dssp             CCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCE
T ss_pred             CcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCE
Confidence            35567999999999999999999988888878888999999998899999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      +|+|||+++..+|+.+..|+..+....++.|.|||+||+|+...      . ...+...+++..++++++|||++|.|++
T Consensus        91 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~------~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  163 (221)
T 3gj0_A           91 AIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDR------K-VKAKSIVFHRKKNLQYYDISAKSNYNFE  163 (221)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSTTCCEEEEEECTTSSSC------S-SCGGGCCHHHHHTCEEEECBGGGTBTTT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCccccc------c-ccHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            99999999999999999999999998777777899999997321      1 1225567888899999999999999999


Q ss_pred             HHHHHHHHHHhcCcc
Q 041042          239 KILKFITAKLFDIPW  253 (268)
Q Consensus       239 ~~f~~l~~~i~~~~~  253 (268)
                      ++|++|.+.+...+.
T Consensus       164 ~l~~~l~~~l~~~~~  178 (221)
T 3gj0_A          164 KPFLWLARKLIGDPN  178 (221)
T ss_dssp             HHHHHHHHHHHTCTT
T ss_pred             HHHHHHHHHHHhCcc
Confidence            999999999988764

>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=100.00  E-value=7.2e-32  Score=219.14  Aligned_cols=164  Identities=18%  Similarity=0.243  Sum_probs=134.4

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcC--CCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc-cccchhhhhcCCcE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGD--EKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK-AQDHLPVACKDSIA  158 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-~~~~~~~~~~~a~~  158 (268)
                      ..+||+++|++|||||||+++|++.  .|... .+++|.++..+.+.+++..+.+.+|||+|++. +..+...|++.+|+
T Consensus         5 ~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~   83 (192)
T 2cjw_A            5 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD-XEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDA   83 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCcCCcCcc-ccccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCE
Confidence            4699999999999999999999963  34433 34578888888889999999999999999877 56678889999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcC
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNIN  236 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  236 (268)
                      +++|||+++.+||+.+..|+..+....  .+.|.|+||||+|+.     ..+.+..+++..++..++++|++|||++|.|
T Consensus        84 ~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~-----~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~  158 (192)
T 2cjw_A           84 YLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV-----RXREVSVSEGRAXAVVFDXKFIETSAAVQHN  158 (192)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCEEEECBTTTTBS
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhh-----ccccccHHHHHHHHHHhCCceEEeccccCCC
Confidence            999999999999999999998887653  345557999999972     1233446778889999999999999999999


Q ss_pred             HHHHHHHHHHHHhcC
Q 041042          237 VNKILKFITAKLFDI  251 (268)
Q Consensus       237 i~~~f~~l~~~i~~~  251 (268)
                      |+++|+++++.+...
T Consensus       159 v~~lf~~l~~~~~~~  173 (192)
T 2cjw_A          159 VKELFEGIVRQVRLR  173 (192)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999988543

>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=100.00  E-value=9.6e-32  Score=220.62  Aligned_cols=169  Identities=20%  Similarity=0.297  Sum_probs=141.1

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|.+|||||||+++|.++.+...+.+|++.++. ..+.+++..+.+.+|||+|++++..++..+++++|++|
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEE
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEE
Confidence            45689999999999999999999999998888888887765 44778899999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHH-HHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc----------hhchHHHHHHHHHHhCC-eEEE
Q 041042          161 FMFDLTSRCTLKSV-IRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL----------QWTIASQARAYAKALNA-TLFF  228 (268)
Q Consensus       161 lv~D~~~~~s~~~~-~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~----------~~~~~~~~~~~~~~~~~-~~~~  228 (268)
                      +|||+++.++|+.+ ..|+..+....++.|++||+||+|+.   ....          +.+..+++..+++..++ ++++
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~---~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  178 (207)
T 2fv8_A          102 MCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLR---SDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLE  178 (207)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGG---GCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhh---ccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEE
Confidence            99999999999999 68999998877777778999999972   2110          12346788899999998 8999


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhcCcc
Q 041042          229 SSATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      |||++|.|++++|++|.+.+++...
T Consensus       179 ~SA~~g~gi~el~~~l~~~i~~~~~  203 (207)
T 2fv8_A          179 CSAKTKEGVREVFETATRAALQKRY  203 (207)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHSCCC
T ss_pred             eeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999887653

>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=100.00  E-value=9.8e-33  Score=221.00  Aligned_cols=165  Identities=20%  Similarity=0.312  Sum_probs=127.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|.++.+...+.+|++..+. ..+.+++..+.+++|||+|+++|..++..+++++|+++
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   84 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFI   84 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEE
Confidence            34699999999999999999999999988888888876654 34556778888999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCccch---------hchHHHHHHHHHHhCC-eEEEE
Q 041042          161 FMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQ---------WTIASQARAYAKALNA-TLFFS  229 (268)
Q Consensus       161 lv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~---------~~~~~~~~~~~~~~~~-~~~~~  229 (268)
                      +|||++++.+|+.+. .|+..+....++.|++||+||+|+.    +...         .+..+++.++++.+++ ++++|
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~----~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  160 (182)
T 3bwd_D           85 LAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLR----DDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIEC  160 (182)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHH----TCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhh----cCcccccccccCCCCCHHHHHHHHHHcCCCEEEEE
Confidence            999999999999998 7999999887766778999999962    1111         1256788999999997 99999


Q ss_pred             cCCCCcCHHHHHHHHHHHHhc
Q 041042          230 SATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      ||++|.|++++|++|++.+++
T Consensus       161 Sa~~~~gi~~l~~~l~~~i~~  181 (182)
T 3bwd_D          161 SSKSQENVKGVFDAAIRVVLQ  181 (182)
T ss_dssp             CTTTCTTHHHHHHHHHHHHSC
T ss_pred             ECCCCCCHHHHHHHHHHHHhc
Confidence            999999999999999998764

>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=100.00  E-value=2.1e-31  Score=209.19  Aligned_cols=161  Identities=13%  Similarity=0.211  Sum_probs=142.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|.+|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+.+|||+|++++..++..+++.+|++++|
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEE
Confidence            58999999999999999999999988888888877554 46777889999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ||+++..+++.+..|+..+.....  +.|.++|+||+|+.   .   .....+++.++++.++++++++||++|.|++++
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~---~---~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  155 (166)
T 2ce2_X           82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLA---A---RTVESRQAQDLARSYGIPYIETSAKTRQGVEDA  155 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCS---C---CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhh---h---cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Confidence            999999999999999999887743  55667999999972   1   334577888999999999999999999999999


Q ss_pred             HHHHHHHHhc
Q 041042          241 LKFITAKLFD  250 (268)
Q Consensus       241 f~~l~~~i~~  250 (268)
                      |++|.+.+.+
T Consensus       156 ~~~l~~~~~~  165 (166)
T 2ce2_X          156 FYTLVREIRQ  165 (166)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999998754

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=1.3e-32  Score=224.96  Aligned_cols=168  Identities=11%  Similarity=0.222  Sum_probs=110.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcC--CCCCCCCCCcceeeEEEEEEECCe--EEEEEEEeCCCccccccchhhhhcCC
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGD--EKEQGGSPGEGLNMMDKTLLVRGA--RISYSIWEVTGDAKAQDHLPVACKDS  156 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~--~~~~~~~~t~~~~~~~~~~~~~~~--~~~l~i~Dt~G~~~~~~~~~~~~~~a  156 (268)
                      ...+||+|+|++|||||||+++|.++  .+...+.+|++.++....+.+++.  .+.+++|||+|++.+..++..+++++
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   97 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGV   97 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhC
Confidence            46799999999999999999999999  888888999998888888888887  89999999999999999999999999


Q ss_pred             cEEEEEEeCCChhhHHHHHHHHHHHHHhCC----CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          157 IAILFMFDLTSRCTLKSVIRWYQQARKCNQ----TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       157 ~~vilv~D~~~~~s~~~~~~~~~~i~~~~~----~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      |++|+|||+++..+|+.+..|+..+.....    +.|++||+||+|+.    ...+.+..+++.++++.++++++++||+
T Consensus        98 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~----~~~~~v~~~~~~~~~~~~~~~~~~~Sa~  173 (208)
T 2yc2_C           98 YYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLP----PQRHQVRLDMAQDWATTNTLDFFDVSAN  173 (208)
T ss_dssp             CEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-----------CCCHHHHHHHHHHTTCEEEECCC-
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccc----hhhccCCHHHHHHHHHHcCCEEEEeccC
Confidence            999999999999999999999999998865    44557999999972    1023345788999999999999999999


Q ss_pred             C-CcCHHHHHHHHHHHHhcCc
Q 041042          233 Y-NINVNKILKFITAKLFDIP  252 (268)
Q Consensus       233 ~-~~~i~~~f~~l~~~i~~~~  252 (268)
                      + |.|++++|++|.+.+.+..
T Consensus       174 ~~~~gi~~l~~~i~~~~~~~~  194 (208)
T 2yc2_C          174 PPGKDADAPFLSIATTFYRNY  194 (208)
T ss_dssp             ------CHHHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHHHHHH
Confidence            9 9999999999999887654

>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=100.00  E-value=7.5e-32  Score=220.97  Aligned_cols=165  Identities=21%  Similarity=0.280  Sum_probs=140.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|.+|||||||+++|.++.+...+.+|++. .....+.+++..+.+++|||+|++.|..++..+++++|++
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  105 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVF  105 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEE-EEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeecc-eeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEE
Confidence            455799999999999999999999999998888888864 4456778889999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCccc----------hhchHHHHHHHHHHhCC-eEE
Q 041042          160 LFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL----------QWTIASQARAYAKALNA-TLF  227 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~----------~~~~~~~~~~~~~~~~~-~~~  227 (268)
                      |+|||+++..+|+.+. .|+..+....++.|.+||+||+|+.   ....          +.+..+++..+++..++ +++
T Consensus       106 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~---~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  182 (204)
T 4gzl_A          106 LICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLR---DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYL  182 (204)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECHHHH---TCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEE
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhc---cchhhhhhhhccccccccHHHHHHHHHhcCCcEEE
Confidence            9999999999999997 8999999888677778999999972   1111          11446788899999986 599


Q ss_pred             EEcCCCCcCHHHHHHHHHHHH
Q 041042          228 FSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       228 ~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      +|||++|.||+++|++|.+.+
T Consensus       183 ~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          183 ECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             ECCTTTCTTHHHHHHHHHHTT
T ss_pred             EeeCCCCCCHHHHHHHHHHHh
Confidence            999999999999999998865

>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=99.98  E-value=1.2e-31  Score=217.73  Aligned_cols=166  Identities=16%  Similarity=0.198  Sum_probs=144.4

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|.+|||||||+++|.++.+...+.+|++.++. ..+.+++..+.+.+|||+|++.+..++..+++.+|++|
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   84 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFI   84 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEE
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEE
Confidence            34699999999999999999999999988888888886654 56677888999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhC---CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCN---QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~---~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      +|||+++..+|+.+..|+..+....   ++.|++||+||+|+.      ...+..+++..+++.++++++++||++|.|+
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  158 (199)
T 2gf0_A           85 LVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDET------QREVDTREAQAVAQEWKCAFMETSAKMNYNV  158 (199)
T ss_dssp             EEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCS------SCSSCHHHHHHHHHHHTCEEEECBTTTTBSH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCC------ccccCHHHHHHHHHHhCCeEEEEecCCCCCH
Confidence            9999999999999999988877653   245667999999972      1334467888899999999999999999999


Q ss_pred             HHHHHHHHHHHhcCcc
Q 041042          238 NKILKFITAKLFDIPW  253 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~~  253 (268)
                      +++|++|++.+.+...
T Consensus       159 ~~l~~~l~~~~~~~~~  174 (199)
T 2gf0_A          159 KELFQELLTLETRRNM  174 (199)
T ss_dssp             HHHHHHHHHHCSSSCE
T ss_pred             HHHHHHHHHHHhhhhc
Confidence            9999999998877653

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.98  E-value=1.3e-31  Score=211.92  Aligned_cols=163  Identities=17%  Similarity=0.244  Sum_probs=141.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|.+|||||||+++|.++.+...+.+|++.++. ..+..++..+.+++|||+|++++..++..+++.+|++++|
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v   81 (172)
T 2erx_A            3 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILV   81 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEE
Confidence            589999999999999999999999988888888886654 5567788889999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC---CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN---QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~---~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      ||+++.++++.+..|+..+.+..   ++.|+++|+||+|+.     ..+.+..+++..+++.++++++++||++|.|+++
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  156 (172)
T 2erx_A           82 YSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES-----PSREVQSSEAEALARTWKCAFMETSAKLNHNVKE  156 (172)
T ss_dssp             EETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGG-----GGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHH
T ss_pred             EECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccc-----cccccCHHHHHHHHHHhCCeEEEecCCCCcCHHH
Confidence            99999999999999998887753   355668999999972     1223446778889999999999999999999999


Q ss_pred             HHHHHHHHHhcC
Q 041042          240 ILKFITAKLFDI  251 (268)
Q Consensus       240 ~f~~l~~~i~~~  251 (268)
                      +|++|.+.+...
T Consensus       157 l~~~l~~~~~~~  168 (172)
T 2erx_A          157 LFQELLNLEKRR  168 (172)
T ss_dssp             HHHHHHHTCCSS
T ss_pred             HHHHHHHHHhhh
Confidence            999999876554

>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=99.98  E-value=1.6e-31  Score=217.26  Aligned_cols=165  Identities=13%  Similarity=0.197  Sum_probs=143.2

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++.++ ...+.+++..+.+++|||+|++. ..++..+++.+|++
T Consensus        25 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~i  102 (196)
T 2atv_A           25 KSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGF  102 (196)
T ss_dssp             --CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEE
Confidence            34579999999999999999999999999888899988665 46678899999999999999988 77889999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCc-C
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNI-N  236 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~  236 (268)
                      |+|||++++++|+.+..|+..+....  .+.|++||+||+|+.     ..+.+..+++..+++.+++++++|||++|. |
T Consensus       103 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~g  177 (196)
T 2atv_A          103 VLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLD-----HSRQVSTEEGEKLATELACAFYECSACTGEGN  177 (196)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGG-----GGCCSCHHHHHHHHHHHTSEEEECCTTTCTTC
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccc-----cccccCHHHHHHHHHHhCCeEEEECCCcCCcC
Confidence            99999999999999999999988753  355567999999972     123345788899999999999999999999 9


Q ss_pred             HHHHHHHHHHHHhcC
Q 041042          237 VNKILKFITAKLFDI  251 (268)
Q Consensus       237 i~~~f~~l~~~i~~~  251 (268)
                      ++++|++|++.+.+.
T Consensus       178 i~~l~~~l~~~i~~~  192 (196)
T 2atv_A          178 ITEIFYELCREVRRR  192 (196)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999988654

>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=99.98  E-value=8.3e-32  Score=222.38  Aligned_cols=171  Identities=21%  Similarity=0.255  Sum_probs=146.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECC-eEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRG-ARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      ....+||+|+|.+|||||||+++|+++.+...+.+|++.++....+...+ ..+.+.+|||+|++.+..++..+++++|+
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASG   87 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSE
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCE
Confidence            45679999999999999999999999998888888888887766665543 44889999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      +|+|||+++..+|+.+..|+..+...... .|.+||+||+|+.     ....+..+++..+++..+++++++||++|.|+
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv  162 (218)
T 4djt_A           88 AILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIK-----NRQKISKKLVMEVLKGKNYEYFEISAKTAHNF  162 (218)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC---------CCHHHHHHHTTTCCCEEEEEBTTTTBTT
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-----cccccCHHHHHHHHHHcCCcEEEEecCCCCCH
Confidence            99999999999999999999999887655 4557999999972     22345577888999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCccch
Q 041042          238 NKILKFITAKLFDIPWTL  255 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~~~~  255 (268)
                      +++|++|.+.+.+.....
T Consensus       163 ~~l~~~l~~~~~~~~~~~  180 (218)
T 4djt_A          163 GLPFLHLARIFTGRPDLI  180 (218)
T ss_dssp             THHHHHHHHHHHCCTTCC
T ss_pred             HHHHHHHHHHHhcccccc
Confidence            999999999998876433

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.98  E-value=1.7e-31  Score=216.90  Aligned_cols=167  Identities=14%  Similarity=0.152  Sum_probs=129.8

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCC-CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCc
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQ-GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSI  157 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~  157 (268)
                      +....+||+|+|++|||||||+++|.++.+.. .+.+|+|..+.  .+  ++..+.+++|||+|++++..++..+++++|
T Consensus        13 ~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~--~~--~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   88 (199)
T 4bas_A           13 QSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVE--TF--EKGRVAFTVFDMGGAKKFRGLWETYYDNID   88 (199)
T ss_dssp             ---CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEEE--EE--EETTEEEEEEEECCSGGGGGGGGGGCTTCS
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeEE--EE--EeCCEEEEEEECCCCHhHHHHHHHHHhcCC
Confidence            35567999999999999999999999999888 78899885443  33  345577999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhC---------CCCceEEEEeCCCCCCCCCccchhch-HHH-HHHHHHHhCCeE
Q 041042          158 AILFMFDLTSRCTLKSVIRWYQQARKCN---------QTAIPIIIGTKFDDFIQLPIDLQWTI-ASQ-ARAYAKALNATL  226 (268)
Q Consensus       158 ~vilv~D~~~~~s~~~~~~~~~~i~~~~---------~~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~-~~~~~~~~~~~~  226 (268)
                      ++|+|||+++.++|+.+..|+..+....         .+.|.|||+||+|+...   ...... ... ...+++..++++
T Consensus        89 ~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~  165 (199)
T 4bas_A           89 AVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGA---KTAAELVEILDLTTLMGDHPFVI  165 (199)
T ss_dssp             EEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTC---CCHHHHHHHHTHHHHHTTSCEEE
T ss_pred             EEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCC---CCHHHHHHHhcchhhccCCeeEE
Confidence            9999999999999999999998886641         14566799999997322   111111 111 222235678899


Q ss_pred             EEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          227 FFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      ++|||++|.||+++|++|++.+.+..
T Consensus       166 ~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          166 FASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             EECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             EEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999887654

>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=99.97  E-value=2.3e-32  Score=221.40  Aligned_cols=165  Identities=15%  Similarity=0.105  Sum_probs=138.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCC-----------CCCCcceeeEEEEE-EECCeEEEEEEEeCCCcccccc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQG-----------GSPGEGLNMMDKTL-LVRGARISYSIWEVTGDAKAQD  147 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~-----------~~~t~~~~~~~~~~-~~~~~~~~l~i~Dt~G~~~~~~  147 (268)
                      ....+||+++|++|||||||++.+.+ .+...           +.+|++.++....+ .+++..+.+++|||+|+++|..
T Consensus        11 ~~~~~ki~vvG~~~~GKssL~~~l~~-~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~   89 (198)
T 3t1o_A           11 REINFKIVYYGPGLSGKTTNLKWIYS-KVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNA   89 (198)
T ss_dssp             TEEEEEEEEECSTTSSHHHHHHHHHH-TSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCSH
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHh-hccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHHH
Confidence            56689999999999999999965554 44444           44577777776666 6788899999999999999999


Q ss_pred             chhhhhcCCcEEEEEEeCC------ChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH
Q 041042          148 HLPVACKDSIAILFMFDLT------SRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA  221 (268)
Q Consensus       148 ~~~~~~~~a~~vilv~D~~------~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~  221 (268)
                      ++..+++++|++|+|||++      +.++|+.+..|+.++.....+.|.+||+||+|+..       .+..+++.++++.
T Consensus        90 ~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK~Dl~~-------~~~~~~~~~~~~~  162 (198)
T 3t1o_A           90 SRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPD-------ALPVEMVRAVVDP  162 (198)
T ss_dssp             HHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEECTTSTT-------CCCHHHHHHHHCT
T ss_pred             HHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEchhccc-------ccCHHHHHHHHHh
Confidence            9999999999999999999      67888999999988854445566689999999731       2557888999999


Q ss_pred             hCC-eEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          222 LNA-TLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       222 ~~~-~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +++ +++++||++|.|++++|++|++.+.+..
T Consensus       163 ~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~  194 (198)
T 3t1o_A          163 EGKFPVLEAVATEGKGVFETLKEVSRLVLARV  194 (198)
T ss_dssp             TCCSCEEECBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             cCCceEEEEecCCCcCHHHHHHHHHHHHHHHh
Confidence            999 9999999999999999999999887654

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.97  E-value=1.2e-33  Score=230.46  Aligned_cols=167  Identities=19%  Similarity=0.358  Sum_probs=138.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++.++....+.+++..+.+.+|||+|++.+..++..+++++|++
T Consensus        30 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~  109 (199)
T 3l0i_B           30 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGI  109 (199)
T ss_dssp             CSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEE
Confidence            45679999999999999999999999998888888889899889999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++.++|+.+..|+..+........| +||+||+|+.     ..+.+..+++..+++.++++++++||++|.||+
T Consensus       110 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~  184 (199)
T 3l0i_B          110 IVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT-----TKKVVDYTTAKEFADSLGIPFLETSAKNATNVE  184 (199)
T ss_dssp             EECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC-------CCCCSCC-CHHHHTTTCCBCCCCC---HHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCC-----ccccCCHHHHHHHHHHcCCeEEEEECCCCCCHH
Confidence            9999999999999999999999887654555 6999999973     112233456788899999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|++.+.+.
T Consensus       185 ~l~~~l~~~l~~~  197 (199)
T 3l0i_B          185 QSFMTMAAEIKKR  197 (199)
T ss_dssp             HHHHHHTTTTTTT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999998877543

>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=99.97  E-value=6.4e-32  Score=217.70  Aligned_cols=166  Identities=16%  Similarity=0.293  Sum_probs=127.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC--CCCCCCCCCcceeeEEEEEEE---CCeEEEEEEEeCCCccccccchhhhhcCCc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD--EKEQGGSPGEGLNMMDKTLLV---RGARISYSIWEVTGDAKAQDHLPVACKDSI  157 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~--~~~~~~~~t~~~~~~~~~~~~---~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~  157 (268)
                      .+||+++|++|||||||+++|.+.  .+...+.+|+|.++..+.+.+   ++..+.+++|||+|+++|..++..|+++++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            489999999999999999999985  566678899999887766654   346788999999999999999999999999


Q ss_pred             EEEEEEeCCCh-hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhc---hHHHHHHHHHHhCCe----EEEE
Q 041042          158 AILFMFDLTSR-CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWT---IASQARAYAKALNAT----LFFS  229 (268)
Q Consensus       158 ~vilv~D~~~~-~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~---~~~~~~~~~~~~~~~----~~~~  229 (268)
                      ++++|||+++. .+|+.+..|+..+....++.|.+|||||+|+.    +. ...   ..+.+..+++.++++    ++++
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~~~piilv~nK~Dl~----~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVILVGTHLDVS----DE-KQRKACMSKITKELLNKRGFPAIRDYHFV  156 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHCTTCEEEEEEECGGGC----CH-HHHHHHHHHHHHHTTTCTTSCEEEEEEEC
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhCCCCcEEEEEECCCcc----cc-hhhHHHHHHHHHHHHHhcCCcchhheEEE
Confidence            99999999997 58999999999998876666667999999962    21 111   135566777778887    9999


Q ss_pred             cCCCCc-CHHHHHHHHHHHHhcCcc
Q 041042          230 SATYNI-NVNKILKFITAKLFDIPW  253 (268)
Q Consensus       230 Sa~~~~-~i~~~f~~l~~~i~~~~~  253 (268)
                      ||++|. +++++++.|.+.+.+.++
T Consensus       157 Sa~~~~~~~~~l~~~i~~~~~~~~~  181 (184)
T 2zej_A          157 NATEESDALAKLRKTIINESLNFKI  181 (184)
T ss_dssp             CTTSCCHHHHHHHHHHHHHHHCC--
T ss_pred             ecccCchhHHHHHHHHHHHHhcccc
Confidence            999996 999999999999887664

>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=99.97  E-value=1e-31  Score=218.60  Aligned_cols=163  Identities=17%  Similarity=0.174  Sum_probs=128.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEE--EC-CeEEEEEEEeCCCccccccch---hhhh
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLL--VR-GARISYSIWEVTGDAKAQDHL---PVAC  153 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~--~~-~~~~~l~i~Dt~G~~~~~~~~---~~~~  153 (268)
                      ....+||+++|++|||||||++++.+. +...  +|++.++..+.+.  +. +..+.+++|||+|+++|..+.   ..++
T Consensus        17 ~~~~~ki~~vG~~~vGKTsLi~~l~~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~   93 (196)
T 3llu_A           17 QGSKPRILLMGLRRSGKSSIQKVVFHK-MSPN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIF   93 (196)
T ss_dssp             ---CCEEEEEESTTSSHHHHHHHHHSC-CCGG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHHH
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHHhc-CCCc--ceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhccccc
Confidence            555799999999999999999988775 3222  4555555444333  33 677889999999999998877   8999


Q ss_pred             cCCcEEEEEEeCCCh--hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCcc-----chhchHHHHHHHHH----Hh
Q 041042          154 KDSIAILFMFDLTSR--CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPID-----LQWTIASQARAYAK----AL  222 (268)
Q Consensus       154 ~~a~~vilv~D~~~~--~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~-----~~~~~~~~~~~~~~----~~  222 (268)
                      +++|++|+|||+++.  ++++.+..|+..+....++.|.+|||||+||   +.++     .+.+..+++..+++    ..
T Consensus        94 ~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl---~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  170 (196)
T 3llu_A           94 RGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDG---LSDDHKIETQRDIHQRANDDLADAGLEKL  170 (196)
T ss_dssp             HTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGG---SCHHHHHHHHHHHHHHHHHHHHHTTCTTS
T ss_pred             ccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCcEEEEEecccc---CchhhhhHHHhHHHHHHHHHHHHhhhhcC
Confidence            999999999999997  7788888888888766767777899999997   3321     23344667788888    77


Q ss_pred             CCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          223 NATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       223 ~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      +++|++|||++ .||+++|+.+++.++
T Consensus       171 ~~~~~e~Sa~~-~~v~~~f~~l~~~li  196 (196)
T 3llu_A          171 HLSFYLTSIYD-HSIFEAFSKVVQKLI  196 (196)
T ss_dssp             CEEEEEECTTS-THHHHHHHHHHHHTC
T ss_pred             CcceEEEEech-hhHHHHHHHHHHHhC
Confidence            89999999999 999999999998763

>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=99.97  E-value=1.5e-30  Score=210.30  Aligned_cols=161  Identities=13%  Similarity=0.157  Sum_probs=128.4

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC-CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE-KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      ....+||+++|.+|||||||+++|.++. +...+.+|++.  ....+.+++  +.+.+|||+|++.+..++..+++++|+
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~~--~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~   93 (190)
T 2h57_A           18 GSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIGF--SIEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKEGQA   93 (190)
T ss_dssp             ---CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSSE--EEEEEECSS--CEEEEEEECCSTTTGGGGGGGGGGCSE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccce--eEEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCE
Confidence            3446999999999999999999999987 66778888874  445566665  678999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhC----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-----HhCCeEEEE
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCN----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-----ALNATLFFS  229 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~  229 (268)
                      +|+|||+++.++|+.+..|+..+....    .+.|.+||+||+|+..       ....+++.+++.     ..++++++|
T Consensus        94 ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (190)
T 2h57_A           94 IIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRD-------AVTSVKVSQLLCLENIKDKPWHICAS  166 (190)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTT-------CCCHHHHHHHHTGGGCCSSCEEEEEC
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCccc-------CCCHHHHHHHhChhhccCCceEEEEc
Confidence            999999999999999999999887763    3455679999999731       112344444442     246789999


Q ss_pred             cCCCCcCHHHHHHHHHHHHhcC
Q 041042          230 SATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ||++|.||+++|++|.+.+.+.
T Consensus       167 Sa~~~~gi~~l~~~l~~~i~~~  188 (190)
T 2h57_A          167 DAIKGEGLQEGVDWLQDQIQTV  188 (190)
T ss_dssp             BTTTTBTHHHHHHHHHHHC---
T ss_pred             cCCCCcCHHHHHHHHHHHHHHh
Confidence            9999999999999999887543

>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=99.97  E-value=3e-31  Score=214.33  Aligned_cols=165  Identities=15%  Similarity=0.213  Sum_probs=129.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.+|++.++..  +.  ...+.+++|||+|++++..++..+++++|++
T Consensus        19 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   94 (188)
T 1zd9_A           19 SKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--IT--KGNVTIKLWDIGGQPRFRSMWERYCRGVSAI   94 (188)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EE--ETTEEEEEEEECCSHHHHTTHHHHHTTCSEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EE--eCCEEEEEEECCCCHhHHHHHHHHHccCCEE
Confidence            3457999999999999999999999999988888999877642  33  3356789999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhch-HHHHHHHHHHhCCeEEEEcCCCCcC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTI-ASQARAYAKALNATLFFSSATYNIN  236 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~Sa~~~~~  236 (268)
                      |+|||+++.++|+.+..|+..+...  ..+.|++||+||+|+....   ..... ......++...++++++|||++|.|
T Consensus        95 i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~g  171 (188)
T 1zd9_A           95 VYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL---DEKELIEKMNLSAIQDREICCYSISCKEKDN  171 (188)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC---CHHHHHHHTTGGGCCSSCEEEEECCTTTCTT
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCC---CHHHHHHHhChhhhccCCeeEEEEECCCCCC
Confidence            9999999999999999999888664  2455667999999973211   11111 1111111223456899999999999


Q ss_pred             HHHHHHHHHHHHhcC
Q 041042          237 VNKILKFITAKLFDI  251 (268)
Q Consensus       237 i~~~f~~l~~~i~~~  251 (268)
                      ++++|++|.+.+...
T Consensus       172 v~~l~~~l~~~~~~~  186 (188)
T 1zd9_A          172 IDITLQWLIQHSKSR  186 (188)
T ss_dssp             HHHHHHHHHHTCC--
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999877543

>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=99.97  E-value=1.5e-30  Score=209.85  Aligned_cols=161  Identities=15%  Similarity=0.156  Sum_probs=125.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|.+|||||||+++|.++.+. .+.+|++.+.  ..+.+++  +.+++|||+|++++..++..+++++|++|+
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   89 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSNV--EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIV   89 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSSC--EEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccce--EEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            4699999999999999999999998876 6777887543  4555665  678999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHH-----HHhCCeEEEEcCCCC
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA-----KALNATLFFSSATYN  234 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~  234 (268)
                      |||+++.++|+.+..|+..+...  ..+.|.++|+||+|+...       ...+++.+..     +..++++++|||++|
T Consensus        90 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~-------~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g  162 (187)
T 1zj6_A           90 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC-------MTVAEISQFLKLTSIKDHQWHIQACCALTG  162 (187)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC-------CCHHHHHHHHTGGGCCSSCEEEEECBTTTT
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC-------CCHHHHHHHhChhhhcCCCcEEEEccCCCC
Confidence            99999999999999999998775  245566799999997321       1122333322     235678999999999


Q ss_pred             cCHHHHHHHHHHHHhcCccc
Q 041042          235 INVNKILKFITAKLFDIPWT  254 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~~~~~  254 (268)
                      .|++++|++|++.+...+..
T Consensus       163 ~gi~~l~~~l~~~~~~~~~~  182 (187)
T 1zj6_A          163 EGLCQGLEWMMSRLKIRLEH  182 (187)
T ss_dssp             BTHHHHHHHHHHHHCC----
T ss_pred             cCHHHHHHHHHHHHHHHhhh
Confidence            99999999999998776543

>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=99.97  E-value=2.2e-30  Score=211.30  Aligned_cols=156  Identities=15%  Similarity=0.152  Sum_probs=121.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|.++.+. .+.+|++.+.  ..+.+++  +.+++|||+|++.++.++..+++++|+++
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~~--~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   97 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPTS--EELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   97 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCcee--EEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEE
Confidence            34589999999999999999999998874 5778887653  5666776  67999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-----------------
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-----------------  221 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-----------------  221 (268)
                      +|||+++.++|+.+..|+..+.+.  ..+.|.++|+||+|+..       .+..+++.+++..                 
T Consensus        98 ~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (198)
T 1f6b_A           98 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE-------AISEERLREMFGLYGQTTGKGSVSLKELNA  170 (198)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT-------CCCHHHHHHHHTCTTTCCCSSCCCTTTCCS
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc-------cCCHHHHHHHhCcccccccccccccccccC
Confidence            999999999999999999988764  23455679999999732       2335566666542                 


Q ss_pred             hCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          222 LNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       222 ~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .++++++|||++|.||+++|++|.+.+
T Consensus       171 ~~~~~~~~SA~~g~gv~~l~~~l~~~l  197 (198)
T 1f6b_A          171 RPLEVFMCSVLKRQGYGEGFRWMAQYI  197 (198)
T ss_dssp             CCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHHhc
Confidence            346899999999999999999998643

>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=99.97  E-value=9.3e-31  Score=206.01  Aligned_cols=161  Identities=18%  Similarity=0.179  Sum_probs=122.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|.++.+. .+.||++..  ...+..  ..+.+++|||+|++.+..++..+++++|++++||
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFN--VETVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSS-CCCCCSSCC--EEEEEC--SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcC-cccCcCcee--EEEEEE--CCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            58999999999999999999998875 467788743  334443  4467999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |++++++|+.+..|+..+...  ..+.|++||+||+|+.....  ...........+++..++++++|||++|.|++++|
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCCC--HHHHHHHhCcccccCccEEEEEcccCCCcCHHHHH
Confidence            999999999999999888654  23455579999999732110  01111111112223345679999999999999999


Q ss_pred             HHHHHHHhcC
Q 041042          242 KFITAKLFDI  251 (268)
Q Consensus       242 ~~l~~~i~~~  251 (268)
                      ++|.+.+.++
T Consensus       154 ~~l~~~i~~~  163 (164)
T 1r8s_A          154 DWLSNQLRNQ  163 (164)
T ss_dssp             HHHHHHC---
T ss_pred             HHHHHHHhhc
Confidence            9999887543

>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=99.97  E-value=3.5e-30  Score=203.92  Aligned_cols=162  Identities=17%  Similarity=0.208  Sum_probs=128.3

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|.++.+. .+.+|++...  ..+.++  .+.+++|||+|++.+..++..+++++|++|+
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~--~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   80 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFNV--ETVTYK--NLKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   80 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSSEEE--EEEEET--TEEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCccce--EEEEEC--CEEEEEEECCCChhhhHHHHHHhccCCEEEE
Confidence            3599999999999999999999998874 5677877543  455555  4678999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhch-HHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTI-ASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |||+++.++|+.+..|+..+....  .+.|++||+||+|+...   ...... ......+++..+++++++||++|.|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  157 (171)
T 1upt_A           81 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA---MTSSEMANSLGLPALKDRKWQIFKTSATKGTGLD  157 (171)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC---CCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCC---CCHHHHHHHhCchhccCCceEEEECcCCCCcCHH
Confidence            999999999999999988876542  35555799999997321   111111 222223344557789999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|.+.+.+.
T Consensus       158 ~l~~~l~~~i~~~  170 (171)
T 1upt_A          158 EAMEWLVETLKSR  170 (171)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhhc
Confidence            9999999988654

>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=99.97  E-value=6.3e-31  Score=211.10  Aligned_cols=156  Identities=15%  Similarity=0.185  Sum_probs=124.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|.+|||||||+++|.++.+ ..+.+|+|.+.  ..+.+++  +.+.+|||+|++++..++..+++++|++
T Consensus        18 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   92 (181)
T 2h17_A           18 GSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFV   92 (181)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT--EEEEEEEESSSGGGTCGGGGGGTTCCEE
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEE
Confidence            44569999999999999999999999988 56777887554  4555555  6789999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHH-----HHhCCeEEEEcCC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA-----KALNATLFFSSAT  232 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~  232 (268)
                      |+|||+++.++|+.+..|+..+...  ..+.|++||+||+|+...       ...+++.+..     +..++++++|||+
T Consensus        93 i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~-------~~~~~i~~~~~~~~~~~~~~~~~~~Sa~  165 (181)
T 2h17_A           93 IVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC-------MTVAEISQFLKLTSIKDHQWHIQACCAL  165 (181)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC-------CCHHHHHHHTTGGGCCSSCEEEEECBTT
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC-------CCHHHHHHHhCcccccCCceEEEEccCC
Confidence            9999999999999999999888765  245556799999997321       1122222222     3346689999999


Q ss_pred             CCcCHHHHHHHHHHH
Q 041042          233 YNINVNKILKFITAK  247 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~  247 (268)
                      +|.|++++|++|++.
T Consensus       166 ~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          166 TGEGLCQGLEWMMSR  180 (181)
T ss_dssp             TTBTHHHHHHHHHTC
T ss_pred             CCcCHHHHHHHHHhh
Confidence            999999999998764

>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=99.97  E-value=7.7e-30  Score=206.66  Aligned_cols=155  Identities=15%  Similarity=0.143  Sum_probs=126.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|.++.+. .+.+|++.+  ...+.+++  +.+++|||+|++.++.++..+++++|++|
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   95 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT--SEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIV   95 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCE--EEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCC--eEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEE
Confidence            34589999999999999999999998874 577787764  45666776  77899999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH------------hCCeE
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA------------LNATL  226 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~------------~~~~~  226 (268)
                      +|||+++.++|+.+..|+..+.+.  ..+.|.++|+||+|+..       .+..+++.+++..            .++++
T Consensus        96 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (190)
T 1m2o_B           96 FLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN-------AVSEAELRSALGLLNTTGSQRIEGQRPVEV  168 (190)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT-------CCCHHHHHHHTTCSSCCC---CCSSCCEEE
T ss_pred             EEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC-------CCCHHHHHHHhCCccccccccccccceEEE
Confidence            999999999999999999988764  23455579999999732       2234455554432            45789


Q ss_pred             EEEcCCCCcCHHHHHHHHHHH
Q 041042          227 FFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      ++|||++|.|++++|++|++.
T Consensus       169 ~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          169 FMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             EECBTTTTBSHHHHHHHHHTT
T ss_pred             EEeECCcCCCHHHHHHHHHhh
Confidence            999999999999999999764

>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=99.97  E-value=4.8e-29  Score=203.25  Aligned_cols=165  Identities=23%  Similarity=0.449  Sum_probs=143.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|.+..+...+.+|+|.++....+.+++..+.+++||++|++.+..++..+++.++++++
T Consensus         4 ~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~   83 (199)
T 2f9l_A            4 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALL   83 (199)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEE
T ss_pred             ceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEEE
Confidence            46999999999999999999999999988888999999988999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      |||+++..+|+++..|+..+...... .+.++|+||+|+.     .......++++.++...++.++++||+++.|++++
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~-----~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l  158 (199)
T 2f9l_A           84 VYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR-----HLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEA  158 (199)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccc-----cccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            99999999999999999888776543 4446999999972     12233467788999999999999999999999999


Q ss_pred             HHHHHHHHhcC
Q 041042          241 LKFITAKLFDI  251 (268)
Q Consensus       241 f~~l~~~i~~~  251 (268)
                      |+.|.+.+.+.
T Consensus       159 ~~~l~~~~~~~  169 (199)
T 2f9l_A          159 FKNILTEIYRI  169 (199)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999888653

>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=99.97  E-value=7.7e-30  Score=205.23  Aligned_cols=159  Identities=20%  Similarity=0.206  Sum_probs=128.4

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|.++. ...+.+|++..  ...+.+++  +.+++|||+|++++..++..+++++|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~--~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   90 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFN--IKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLI   90 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEE--EEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccc--eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            346999999999999999999999988 67788888854  34555554  67899999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHH-----HHhCCeEEEEcCCC
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA-----KALNATLFFSSATY  233 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~  233 (268)
                      +|||++++++|+.+..|+..+...  ..+.|+++|+||+|+...   .    ..+++.+..     +..+++++++||++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~---~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  163 (186)
T 1ksh_A           91 WVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA---L----SCNAIQEALELDSIRSHHWRIQGCSAVT  163 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC---C----CHHHHHHHTTGGGCCSSCEEEEECCTTT
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCC---C----CHHHHHHHhChhhccCCceEEEEeeCCC
Confidence            999999999999999999888765  234555799999997321   1    112222221     23567899999999


Q ss_pred             CcCHHHHHHHHHHHHhcC
Q 041042          234 NINVNKILKFITAKLFDI  251 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~  251 (268)
                      |.|++++|++|.+.+.+.
T Consensus       164 ~~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          164 GEDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             CTTHHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhc
Confidence            999999999999988765

>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=99.97  E-value=7.6e-29  Score=201.05  Aligned_cols=164  Identities=21%  Similarity=0.399  Sum_probs=145.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.+..+...+.+|++.++....+.+++..+.+++||++|++++..++..+++.++++
T Consensus        26 ~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~  105 (191)
T 1oix_A           26 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGA  105 (191)
T ss_dssp             CSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEE
Confidence            45579999999999999999999999999888999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      ++|||+++..+|+++..|+..+..... ..+.++|+||+||.     .......++++.++...++.++++||+++.|++
T Consensus       106 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~-----~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~  180 (191)
T 1oix_A          106 LLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR-----HLRAVPTDEARAFAEKNGLSFIETSALDSTNVE  180 (191)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc-----cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            999999999999999999988877654 34446999999972     122334677899999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 041042          239 KILKFITAKL  248 (268)
Q Consensus       239 ~~f~~l~~~i  248 (268)
                      ++|+.|.+.+
T Consensus       181 ~l~~~l~~~i  190 (191)
T 1oix_A          181 AAFQTILTEI  190 (191)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998875

>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=99.97  E-value=1.9e-29  Score=220.64  Aligned_cols=168  Identities=21%  Similarity=0.292  Sum_probs=145.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|.+|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+++|||+|++.+..++..+++++|++|+|
T Consensus       155 ~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v  233 (332)
T 2wkq_A          155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLIC  233 (332)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEE
T ss_pred             eeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEE
Confidence            48999999999999999999999999888889887655 46778899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCc-------cchhchHHHHHHHHHHhCC-eEEEEcCCC
Q 041042          163 FDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPI-------DLQWTIASQARAYAKALNA-TLFFSSATY  233 (268)
Q Consensus       163 ~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~-------~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~  233 (268)
                      ||+++..+|+.+. .|+..+....++.|.+||+||+|+......       ..+.+..+++..+++..++ ++++|||++
T Consensus       234 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  313 (332)
T 2wkq_A          234 FSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALT  313 (332)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTT
T ss_pred             EeCCCHHHHHHHHHHHHHHHHhhCCCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecCCC
Confidence            9999999999997 799999888776677899999997211000       0123447889999999997 999999999


Q ss_pred             CcCHHHHHHHHHHHHhcC
Q 041042          234 NINVNKILKFITAKLFDI  251 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~  251 (268)
                      |.|++++|+.|.+.+++.
T Consensus       314 ~~gi~~l~~~l~~~~~~~  331 (332)
T 2wkq_A          314 QRGLKTVFDEAIRAVLCP  331 (332)
T ss_dssp             CTTHHHHHHHHHHHHHC-
T ss_pred             CcCHHHHHHHHHHHHhcC
Confidence            999999999999988764

>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=99.97  E-value=2e-30  Score=208.44  Aligned_cols=159  Identities=16%  Similarity=0.192  Sum_probs=123.4

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|.++.+ ..+.+|+|.+  .+.+.++  .+.+++|||+|++.+..++..+++++|+++
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g~~--~~~~~~~--~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGFN--IKSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETTEE--EEEEEET--TEEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCCeE--EEEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            3469999999999999999999998865 4566777744  3455566  467899999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHH-----HHHhCCeEEEEcCCC
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAY-----AKALNATLFFSSATY  233 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~  233 (268)
                      +|||+++.++|+.+..|+..+...  ..+.|.+||+||+|+....      . .+++.+.     +...++++++|||++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~------~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~  161 (181)
T 1fzq_A           89 YVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA------P-ASEIAEGLNLHTIRDRVWQIQSCSALT  161 (181)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC------C-HHHHHHHTTGGGCCSSCEEEEECCTTT
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCC------C-HHHHHHHhCchhccCCceEEEEccCCC
Confidence            999999999999999998887543  2345567999999973211      1 1222111     123456899999999


Q ss_pred             CcCHHHHHHHHHHHHhcC
Q 041042          234 NINVNKILKFITAKLFDI  251 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~  251 (268)
                      |.|++++|++|++.+.+.
T Consensus       162 g~gi~~l~~~l~~~~~~~  179 (181)
T 1fzq_A          162 GEGVQDGMNWVCKNVNAK  179 (181)
T ss_dssp             CTTHHHHHHHHHHTC---
T ss_pred             CCCHHHHHHHHHHHHHhc
Confidence            999999999999877553

>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=99.97  E-value=4.7e-30  Score=208.29  Aligned_cols=164  Identities=18%  Similarity=0.219  Sum_probs=121.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+. .+.+|++..  ...+..+  .+.+++|||+|++++..++..+++++|++
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i  100 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFN--VETVEYK--NICFTVWDVGGQDKIRPLWRHYFQNTQGL  100 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSSCCE-EEEEETTEE--EEEEEET--TEEEEEEECC-----CTTHHHHHHTCCEE
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhCCcc-ccCCcCcee--EEEEEEC--CEEEEEEECCCCHhHHHHHHHHhccCCEE
Confidence            344699999999999999999999988875 456777733  3445444  46799999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+|||+++.++|+.+..|+..+....  .+.|++||+||+|+.....  ...........+++..++++++|||++|.|+
T Consensus       101 ilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi  178 (192)
T 2b6h_A          101 IFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAMP--VSELTDKLGLQHLRSRTWYVQATCATQGTGL  178 (192)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCSSCCEEEEECBTTTTBTH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCCC--HHHHHHHhCcccccCCceEEEECcCCCcCCH
Confidence            99999999999999999998886542  3455579999999732110  0111111111222334567999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 041042          238 NKILKFITAKLFD  250 (268)
Q Consensus       238 ~~~f~~l~~~i~~  250 (268)
                      +++|++|++.+.+
T Consensus       179 ~~l~~~l~~~i~~  191 (192)
T 2b6h_A          179 YDGLDWLSHELSK  191 (192)
T ss_dssp             HHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988754

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.96  E-value=7e-31  Score=227.76  Aligned_cols=167  Identities=15%  Similarity=0.145  Sum_probs=132.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCC---CCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc---chhhhhcCCcE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQ---GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD---HLPVACKDSIA  158 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~---~~~~~~~~a~~  158 (268)
                      ||+++|+.|||||||++++.++.+..   .+.+|+|.++..    + +..+++++||||||++|..   ++..||+++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v-~~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----F-STLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----E-CSSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----E-ccEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            79999999999999999988764322   367899988753    2 3458899999999999974   46899999999


Q ss_pred             EEEEEeCCCh--hhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc-----hhchHHHHHHHHHH----hCCeEE
Q 041042          159 ILFMFDLTSR--CTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL-----QWTIASQARAYAKA----LNATLF  227 (268)
Q Consensus       159 vilv~D~~~~--~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~-----~~~~~~~~~~~~~~----~~~~~~  227 (268)
                      +|+|||+++.  ++++.+..|+..+....++.|++|||||+||   ..++.     +.+..++++++++.    +++.||
T Consensus        76 ~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL---~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~  152 (331)
T 3r7w_B           76 LVYVIDSQDEYINAITNLAMIIEYAYKVNPSINIEVLIHKVDG---LSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFY  152 (331)
T ss_dssp             EEEECCCSSCTTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCS---SCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEE
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHHhhcCCCCcEEEEEECccc---CchhhhhhHHHHhhHHHHHHHHhhcccccCceEE
Confidence            9999999998  4444455556666666776666799999997   33322     33447788888886    689999


Q ss_pred             EEcCCCCcCHHHHHHHHHHHHhcCccchhcccC
Q 041042          228 FSSATYNINVNKILKFITAKLFDIPWTLERNLT  260 (268)
Q Consensus       228 ~~Sa~~~~~i~~~f~~l~~~i~~~~~~~~~~~~  260 (268)
                      +|||++ .||.++|..+++.++......+..+.
T Consensus       153 eTSAkd-~nV~eAFs~iv~~li~~~~~le~~L~  184 (331)
T 3r7w_B          153 LTSIFD-HSIYEAFSRIVQKLIPELSFLENMLD  184 (331)
T ss_dssp             CCCSSS-SHHHHHHHHHHTTSSTTHHHHHHHHT
T ss_pred             EeccCC-CcHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            999998 59999999999999988777666543

>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=99.96  E-value=3.5e-30  Score=218.42  Aligned_cols=163  Identities=16%  Similarity=0.150  Sum_probs=128.6

Q ss_pred             CceeEEEEEEcCC---------CChHHHHHHHHhc---CCCCCCCCCCc-ceeeEEEEEE--------------ECCeEE
Q 041042           80 NLVALKISLLGDC---------HIGKTSFLEKYVG---DEKEQGGSPGE-GLNMMDKTLL--------------VRGARI  132 (268)
Q Consensus        80 ~~~~~ki~vlG~~---------~vGKSsLi~~l~~---~~~~~~~~~t~-~~~~~~~~~~--------------~~~~~~  132 (268)
                      ....+||+|+|++         |||||||+++|++   +.+...+.+|+ +.++..+.+.              +++..+
T Consensus        16 ~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~   95 (255)
T 3c5h_A           16 FQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVEC   95 (255)
T ss_dssp             CCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC---------
T ss_pred             CCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcEE
Confidence            4456999999999         9999999999999   66777788876 6665443332              467889


Q ss_pred             EEEEEe-----------------------CCCccccccchhhhhc---------------------CCcEEEEEEeCCCh
Q 041042          133 SYSIWE-----------------------VTGDAKAQDHLPVACK---------------------DSIAILFMFDLTSR  168 (268)
Q Consensus       133 ~l~i~D-----------------------t~G~~~~~~~~~~~~~---------------------~a~~vilv~D~~~~  168 (268)
                      .+++||                       ++|+++|..++..+++                     +||++|+|||++++
T Consensus        96 ~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~~  175 (255)
T 3c5h_A           96 KMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSRG  175 (255)
T ss_dssp             CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC-
T ss_pred             EEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECCCC
Confidence            999999                       8889999999999988                     79999999999998


Q ss_pred             --hhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-hCCeEEEEcCCCCcCHHHHHHH
Q 041042          169 --CTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-LNATLFFSSATYNINVNKILKF  243 (268)
Q Consensus       169 --~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~i~~~f~~  243 (268)
                        +||+.+..|+..+...  ..+.|+||||||+||      ...+.. +++.++++. .++++++|||++|.||+++|++
T Consensus       176 ~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl------~~~~~v-~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~  248 (255)
T 3c5h_A          176 MNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDE------GVERYI-RDAHTFALSKKNLQVVETSARSNVNVDLAFST  248 (255)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGG------BCHHHH-HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccc------cccHHH-HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHH
Confidence              9999999999998765  245566899999996      222222 577888887 4899999999999999999999


Q ss_pred             HHHHHh
Q 041042          244 ITAKLF  249 (268)
Q Consensus       244 l~~~i~  249 (268)
                      |++.+.
T Consensus       249 l~~~l~  254 (255)
T 3c5h_A          249 LVQLID  254 (255)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            998764

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.96  E-value=1.2e-29  Score=204.85  Aligned_cols=164  Identities=18%  Similarity=0.181  Sum_probs=127.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|++|||||||+++|.++.+. .+.+|++..  ...+.++  .+.+++|||+|++++..++..+++++|++|
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~t~~~~--~~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   94 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVV-TTVPTVGVN--LETLQYK--NISFEVWDLGGQTGVRPYWRCYFSDTDAVI   94 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCE-EECSSTTCC--EEEEEET--TEEEEEEEECCSSSSCCCCSSSSTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCC-CcCCCCceE--EEEEEEC--CEEEEEEECCCCHhHHHHHHHHhhcCCEEE
Confidence            34699999999999999999999988875 467787744  3445555  467899999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhch-HHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTI-ASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      +|||++++++|+.+..|+..+....  .+.|+++|+||+|+..   ....... .......++..++++++|||++|.|+
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (189)
T 2x77_A           95 YVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPD---AASEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGL  171 (189)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTT---CCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcC---CCCHHHHHHHhChhhccCCceEEEEccCCCccCH
Confidence            9999999999999999988876642  3455579999999732   1111111 11112223345678999999999999


Q ss_pred             HHHHHHHHHHHhcCc
Q 041042          238 NKILKFITAKLFDIP  252 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~  252 (268)
                      +++|++|.+.+.+..
T Consensus       172 ~~l~~~l~~~i~~~~  186 (189)
T 2x77_A          172 VEGMDWLVERLREQG  186 (189)
T ss_dssp             HHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999887654

>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=99.93  E-value=1e-31  Score=219.70  Aligned_cols=167  Identities=22%  Similarity=0.301  Sum_probs=141.1

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|.+|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+++|||+|+++|..++..+++++|++|
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  106 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFL  106 (204)
Confidence            4569999999999999999999999998888888887555 456677888899999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCcc-------chhchHHHHHHHHHHhCC-eEEEEcC
Q 041042          161 FMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPID-------LQWTIASQARAYAKALNA-TLFFSSA  231 (268)
Q Consensus       161 lv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~-------~~~~~~~~~~~~~~~~~~-~~~~~Sa  231 (268)
                      +|||+++..+|+.+. .|+..+....++.|++||+||+|+.......       .+.+..+++..+++..++ ++++|||
T Consensus       107 lv~D~~~~~s~~~~~~~~~~~l~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vSA  186 (204)
T 3th5_A          107 ICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  186 (204)
Confidence            999999999999997 8999888776666668999999973211000       013446778889999998 8999999


Q ss_pred             CCCcCHHHHHHHHHHHH
Q 041042          232 TYNINVNKILKFITAKL  248 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i  248 (268)
                      ++|.|++++|++|++.+
T Consensus       187 ~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          187 LTQRGLKTVFDEAIRAV  203 (204)
Confidence            99999999999998765

>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=99.96  E-value=9e-30  Score=204.04  Aligned_cols=157  Identities=20%  Similarity=0.251  Sum_probs=122.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||++++.++.+ ..+.+|++...  ..+.+++  +.+.+|||+|++.+..++..+++++|++++
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   91 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFNV--ETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVIF   91 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCCE--EEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccce--EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            469999999999999999999998887 56778888543  4555554  678999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHH-----HHhCCeEEEEcCCCC
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA-----KALNATLFFSSATYN  234 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~  234 (268)
                      |||+++.++|+.+..|+..+....  .+.|.++|+||+|+...       ...+++.+..     ...++++++|||++|
T Consensus        92 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~-------~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~  164 (183)
T 1moz_A           92 VVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA-------LSASEVSKELNLVELKDRSWSIVASSAIKG  164 (183)
T ss_dssp             EEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC-------CCHHHHHHHTTTTTCCSSCEEEEEEBGGGT
T ss_pred             EEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC-------CCHHHHHHHhCcccccCCceEEEEccCCCC
Confidence            999999999999999998887653  44555799999997321       1122222222     223457999999999


Q ss_pred             cCHHHHHHHHHHHHhc
Q 041042          235 INVNKILKFITAKLFD  250 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~  250 (268)
                      .|++++|++|.+.+.+
T Consensus       165 ~gi~~l~~~l~~~~~~  180 (183)
T 1moz_A          165 EGITEGLDWLIDVIKE  180 (183)
T ss_dssp             BTHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHh
Confidence            9999999999998764

>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=99.96  E-value=8.4e-29  Score=195.93  Aligned_cols=153  Identities=16%  Similarity=0.167  Sum_probs=117.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc------cchhhhhc--
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ------DHLPVACK--  154 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~------~~~~~~~~--  154 (268)
                      .+||+++|++|||||||+++|.+..+.....++++.+.....+.+++  ..+++|||+|++.+.      .+...|++  
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   80 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINE   80 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcC
Confidence            58999999999999999999999877666667666666666677766  468999999999875      34466775  


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      ++|++++|+|+++.++   ...|+..+.+.  +.|.|+|+||+|+.      ..+....++.++++.++++++++||++|
T Consensus        81 ~~~~~i~v~D~~~~~~---~~~~~~~~~~~--~~p~ilv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~SA~~~  149 (165)
T 2wji_A           81 KPDLVVNIVDATALER---NLYLTLQLMEM--GANLLLALNKMDLA------KSLGIEIDVDKLEKILGVKVVPLSAAKK  149 (165)
T ss_dssp             CCSEEEEEEETTCHHH---HHHHHHHHHHT--TCCEEEEEECHHHH------HHTTCCCCHHHHHHHHTSCEEECBGGGT
T ss_pred             CCCEEEEEecCCchhH---hHHHHHHHHhc--CCCEEEEEEchHhc------cccChhhHHHHHHHHhCCCEEEEEcCCC
Confidence            8999999999988543   45677777653  45668999999962      1111212467888999999999999999


Q ss_pred             cCHHHHHHHHHHHH
Q 041042          235 INVNKILKFITAKL  248 (268)
Q Consensus       235 ~~i~~~f~~l~~~i  248 (268)
                      .|++++|+++.+.+
T Consensus       150 ~~v~~l~~~l~~~~  163 (165)
T 2wji_A          150 MGIEELKKAISIAV  163 (165)
T ss_dssp             BSHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999998876

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.96  E-value=3.8e-28  Score=211.27  Aligned_cols=165  Identities=16%  Similarity=0.175  Sum_probs=133.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcC--CCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc-----ccchhhhh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGD--EKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA-----QDHLPVAC  153 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~--~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~-----~~~~~~~~  153 (268)
                      ..+||+++|++|||||||+++|.++  .+. ..+.+|++.++..  +.+++ .+.+++|||+|++.|     ..++..++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~--~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   78 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSH--LRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIF   78 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEE--EEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEE--EEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHh
Confidence            3589999999999999999999887  333 2567788776653  44444 678999999999998     78899999


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHH---HHHHhCCCCceEEEEeCCCCCCCCCccchh----chHHHHHHHHHHhC---
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWYQ---QARKCNQTAIPIIIGTKFDDFIQLPIDLQW----TIASQARAYAKALN---  223 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~~---~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~----~~~~~~~~~~~~~~---  223 (268)
                      +++|++|+|||+++.++|+++..|..   .+....++.|.+|||||+|+   ..++.+.    +..+++.++++.+|   
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl---~~~~~r~~~~~v~~~~~~~~~~~~g~~~  155 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDL---VQLDKREELFQIMMKNLSETSSEFGFPN  155 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGG---SCHHHHHHHHHHHHHHHHHHHHTTTCCS
T ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccc---cchhhhhHHHHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999977654   44445666666899999997   2222233    55788999999997   


Q ss_pred             CeEEEEcCCCCcCHHHHHHHHHHHHhcCcc
Q 041042          224 ATLFFSSATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       224 ~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      +++++|||++ .|+.++|..+++.+.....
T Consensus       156 ~~~~~tSa~~-~~i~e~~~~iv~~li~~~~  184 (307)
T 3r7w_A          156 LIGFPTSIWD-ESLYKAWSQIVCSLIPNMS  184 (307)
T ss_dssp             CEEEECCTTS-SHHHHHHHHHHHTTCSCHH
T ss_pred             eEEEEeeecC-ChHHHHHHHHHHHHcCCHH
Confidence            7999999999 8999999999988776543

>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=99.95  E-value=8.3e-28  Score=197.78  Aligned_cols=162  Identities=15%  Similarity=0.148  Sum_probs=115.3

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCe-EEEEEEEeCCCcccccc-chhhhhcCCcE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGA-RISYSIWEVTGDAKAQD-HLPVACKDSIA  158 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-~~~l~i~Dt~G~~~~~~-~~~~~~~~a~~  158 (268)
                      ...+||+++|++|||||||+++|+++.+...+.+ ++.++..  +.+++. .+.+++|||+|+++|.. ++..|++++|+
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~-~~~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   81 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTS-ITDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARA   81 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCCC-CSCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCC-cceeeEE--EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCE
Confidence            3468999999999999999999999988776654 4455543  566654 68899999999999988 88999999999


Q ss_pred             EEEEEeCCChh-hHHHHHHH-HHHHHHh---CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-------------
Q 041042          159 ILFMFDLTSRC-TLKSVIRW-YQQARKC---NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-------------  220 (268)
Q Consensus       159 vilv~D~~~~~-s~~~~~~~-~~~i~~~---~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-------------  220 (268)
                      +|+|||+++.. ++..+..| ...+...   ..+.|.+||+||+|+...   .......+.+.+...             
T Consensus        82 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~---~~~~~~~~~l~~~l~~~~~~~~~~~s~~  158 (214)
T 2fh5_B           82 VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA---KSAKLIQQQLEKELNTLRVTRSAAPSTL  158 (214)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC---CCHHHHHHHHHHHHHHHHHHCC------
T ss_pred             EEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCc---ccHHHHHHHHHHHHHHHhccchhccccc
Confidence            99999999864 46666554 4444332   234455799999997322   111222222222221             


Q ss_pred             --------------------Hh--CCeEEEEcCCCC------cCHHHHHHHHHHHH
Q 041042          221 --------------------AL--NATLFFSSATYN------INVNKILKFITAKL  248 (268)
Q Consensus       221 --------------------~~--~~~~~~~Sa~~~------~~i~~~f~~l~~~i  248 (268)
                                          .+  +++|++|||++|      .||+++|++|.+.+
T Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~~  214 (214)
T 2fh5_B          159 DSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKIA  214 (214)
T ss_dssp             ------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHHC
T ss_pred             cCCccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHhC
Confidence                                11  678999999999      99999999998753

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.95  E-value=1.6e-28  Score=215.51  Aligned_cols=164  Identities=18%  Similarity=0.183  Sum_probs=120.0

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+|+|.+|||||||+++|.++.+... .+|++.++.  .+..  ..+.++||||+|++.|..++..+++.+|++|
T Consensus       163 ~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~~--~~~~--~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vi  237 (329)
T 3o47_A          163 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLI  237 (329)
T ss_dssp             CCSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEEE--EEEE--TTEEEEEEECC-----CCSHHHHHTTEEEEE
T ss_pred             cCcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEEE--EEec--CcEEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            3468999999999999999999999887544 467776553  3333  4467999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      +|||+++.++|+.+..|+..+....  ++.|+|||+||+|+.....  ......+....+++..++++++|||++|.||+
T Consensus       238 lV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~  315 (329)
T 3o47_A          238 FVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGDGLY  315 (329)
T ss_dssp             EEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTTBTHH
T ss_pred             EEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCCcCHH
Confidence            9999999999999998887775543  3455579999999732110  01111111112223345679999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|++.+.+.
T Consensus       316 el~~~l~~~l~~~  328 (329)
T 3o47_A          316 EGLDWLSNQLRNQ  328 (329)
T ss_dssp             HHHHHHHHHHTC-
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.95  E-value=4.1e-27  Score=187.48  Aligned_cols=156  Identities=11%  Similarity=0.108  Sum_probs=120.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|.++.+...+.++++.++....+.+++..  +.+|||+|++.|..++..++..+|++|+
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   84 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDKK--ITFLDTPGHEAFTTMRARGAQVTDIVIL   84 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTEE--EEESCCCSSSSSSCSCCSSCCCCCEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCce--EEEEECCCCHHHHHHHHHHHhhCCEEEE
Confidence            46899999999999999999999999888888887777777777788765  6799999999999999999999999999


Q ss_pred             EEeCCC---hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHH-------HHhC--CeEEEE
Q 041042          162 MFDLTS---RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA-------KALN--ATLFFS  229 (268)
Q Consensus       162 v~D~~~---~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~-------~~~~--~~~~~~  229 (268)
                      |||+++   .++++.+    ..+..  .+.|.++|+||+|+.   . ..    .++.....       +.++  +++++|
T Consensus        85 v~d~~~~~~~~~~~~l----~~~~~--~~~p~ilv~nK~Dl~---~-~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (178)
T 2lkc_A           85 VVAADDGVMPQTVEAI----NHAKA--ANVPIIVAINKMDKP---E-AN----PDRVMQELMEYNLVPEEWGGDTIFCKL  150 (178)
T ss_dssp             EEETTCCCCHHHHHHH----HHHGG--GSCCEEEEEETTTSS---C-SC----HHHHHHHHTTTTCCBTTTTSSEEEEEC
T ss_pred             EEECCCCCcHHHHHHH----HHHHh--CCCCEEEEEECccCC---c-CC----HHHHHHHHHhcCcChhHcCCcccEEEE
Confidence            999998   4444332    22221  245567999999972   1 11    11222222       2222  589999


Q ss_pred             cCCCCcCHHHHHHHHHHHHhcCcc
Q 041042          230 SATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      ||++|.|++++|++|++.+...+.
T Consensus       151 Sa~~~~gv~~l~~~l~~~~~~~~~  174 (178)
T 2lkc_A          151 SAKTKEGLDHLLEMILLVSEMEEL  174 (178)
T ss_dssp             CSSSSHHHHHHHHHHHHHHHHTTT
T ss_pred             ecCCCCCHHHHHHHHHHhhhhhcc
Confidence            999999999999999988776553

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.95  E-value=3.3e-27  Score=189.99  Aligned_cols=159  Identities=16%  Similarity=0.182  Sum_probs=126.1

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc------cchhhhhc
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ------DHLPVACK  154 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~------~~~~~~~~  154 (268)
                      +..+||+++|++|||||||+++|.+..+...+.++++.+.....+.+++  ..+++|||+|++.+.      .+...|++
T Consensus         5 ~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   82 (188)
T 2wjg_A            5 MKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYII   82 (188)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHh
Confidence            3569999999999999999999999876566667777777667777765  568899999999875      34666765


Q ss_pred             --CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          155 --DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       155 --~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                        .++++++|+|.++   ++....|+..+..  .+.|.++|+||+|+.      ..+...+++.++++.++++++++||+
T Consensus        83 ~~~~~~~i~v~d~~~---~~~~~~~~~~~~~--~~~piilv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~Sa~  151 (188)
T 2wjg_A           83 NEKPDLVVNIVDATA---LERNLYLTLQLME--MGANLLLALNKMDLA------KSLGIEIDVDKLEKILGVKVVPLSAA  151 (188)
T ss_dssp             HHCCSEEEEEEEGGG---HHHHHHHHHHHHT--TTCCEEEEEECHHHH------HHTTCCCCHHHHHHHHTSCEEECBGG
T ss_pred             ccCCCEEEEEecchh---HHHHHHHHHHHHh--cCCCEEEEEEhhhcc------ccccchHHHHHHHHHhCCCeEEEEec
Confidence              5999999999875   5666788887765  344567999999962      12222245778899999999999999


Q ss_pred             CCcCHHHHHHHHHHHHhcCc
Q 041042          233 YNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +|.|++++|+++++.+.+..
T Consensus       152 ~~~~v~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          152 KKMGIEELKKAISIAVKDKK  171 (188)
T ss_dssp             GTBSHHHHHHHHHHHHTTC-
T ss_pred             CCCCHHHHHHHHHHHHHhcc
Confidence            99999999999999887765

>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=99.94  E-value=1.3e-26  Score=192.93  Aligned_cols=166  Identities=15%  Similarity=0.118  Sum_probs=118.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCc------cc----cccchh
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD------AK----AQDHLP  150 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~------~~----~~~~~~  150 (268)
                      ...+||+|+|.+|||||||+++|+++.+.....+....+.....+..++  ..+.+|||+|+      +.    +.. ..
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~-~~  103 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTT-IT  103 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHH-HH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHH-HH
Confidence            3469999999999999999999999887533333222333333333343  56899999998      33    222 23


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHH--HHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc-hhchHHHHHHHHHHhC--Ce
Q 041042          151 VACKDSIAILFMFDLTSRCTLKS--VIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL-QWTIASQARAYAKALN--AT  225 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~~--~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~--~~  225 (268)
                      .++..+|++|+|||+++..+|+.  ...|+..+....++.|.+||+||+|+.   .... .....+.+..+++..+  ++
T Consensus       104 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~---~~~~~~~~~~~~~~~~~~~~~~~~~  180 (228)
T 2qu8_A          104 ALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKC---NMDSLSIDNKLLIKQILDNVKNPIK  180 (228)
T ss_dssp             HHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGC---C--CCCHHHHHHHHHHHHHCCSCEE
T ss_pred             HhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccC---CchhhHHHHHHHHHHHHHhcCCCce
Confidence            45788999999999999988752  346777766654466668999999973   2111 1112346777888887  89


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          226 LFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +++|||++|.||+++|++|++.+.+..
T Consensus       181 ~~~~SA~~g~gi~~l~~~l~~~i~~~~  207 (228)
T 2qu8_A          181 FSSFSTLTGVGVEQAKITACELLKNDQ  207 (228)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EEEEecccCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999887664

>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=99.94  E-value=9.1e-27  Score=188.44  Aligned_cols=161  Identities=17%  Similarity=0.150  Sum_probs=110.5

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC----------ccccccch
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG----------DAKAQDHL  149 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G----------~~~~~~~~  149 (268)
                      ....+||+|+|.+|||||||+++|.++.+...+.++.+.+.......+++   .+.+|||+|          ++.+..++
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~   96 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMI   96 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHH
Confidence            34468999999999999999999999987677777776665555555544   488999999          78888888


Q ss_pred             hhhhcCC---cEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHH-HHHHhCCe
Q 041042          150 PVACKDS---IAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARA-YAKALNAT  225 (268)
Q Consensus       150 ~~~~~~a---~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~  225 (268)
                      ..+++.+   |++++|+|+++..++.... ++..+..  .+.|.++|+||+|+   ..........+++.+ ++...+++
T Consensus        97 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~--~~~p~i~v~nK~Dl---~~~~~~~~~~~~~~~~~~~~~~~~  170 (195)
T 1svi_A           97 ETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY--YGIPVIVIATKADK---IPKGKWDKHAKVVRQTLNIDPEDE  170 (195)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH--TTCCEEEEEECGGG---SCGGGHHHHHHHHHHHHTCCTTSE
T ss_pred             HHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH--cCCCEEEEEECccc---CChHHHHHHHHHHHHHHcccCCCc
Confidence            8888877   9999999999988877643 2222222  34566799999997   222111112233333 33345789


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          226 LFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      ++++||++|.|++++|++|.+.+.
T Consensus       171 ~~~~Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          171 LILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             eEEEEccCCCCHHHHHHHHHHHhc
Confidence            999999999999999999988764

>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=99.94  E-value=9.1e-27  Score=187.40  Aligned_cols=155  Identities=15%  Similarity=0.230  Sum_probs=122.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC-----------ccccccchhhh
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG-----------DAKAQDHLPVA  152 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G-----------~~~~~~~~~~~  152 (268)
                      +||+++|++|||||||+++|.++.+...+.+++..+.  ..+.++    .+.+|||+|           ++.+..++..|
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~--~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~   75 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   75 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCcccee--EEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHH
Confidence            6999999999999999999999998777777654433  344444    588999999           77888888889


Q ss_pred             hcC-CcEEEEEEeCCChhhHHHH-HHHHHH--------H-HHh-CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH
Q 041042          153 CKD-SIAILFMFDLTSRCTLKSV-IRWYQQ--------A-RKC-NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK  220 (268)
Q Consensus       153 ~~~-a~~vilv~D~~~~~s~~~~-~~~~~~--------i-~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~  220 (268)
                      ++. ++++++|||+.|..+|.++ ..|...        + ... ..+.|.++|+||+|+.    ..  .  .++++++++
T Consensus        76 ~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~----~~--~--~~~~~~~~~  147 (190)
T 2cxx_A           76 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKI----KN--V--QEVINFLAE  147 (190)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGC----SC--H--HHHHHHHHH
T ss_pred             HHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhcc----Cc--H--HHHHHHHHH
Confidence            988 9999999999999999887 577653        2 111 2345567999999972    11  1  567888899


Q ss_pred             HhCCe-------EEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          221 ALNAT-------LFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       221 ~~~~~-------~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      .++++       +++|||++|.|++++|++|++.+.+.+
T Consensus       148 ~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~  186 (190)
T 2cxx_A          148 KFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQ  186 (190)
T ss_dssp             HHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC-
T ss_pred             HhhhhhhccCCcEEEEecCCCCCHHHHHHHHHHhcchhh
Confidence            88875       699999999999999999999887654

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.94  E-value=4.2e-27  Score=219.20  Aligned_cols=166  Identities=19%  Similarity=0.261  Sum_probs=126.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEE------EEE--CCeEEEEEEEeCCCccccccchhh
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKT------LLV--RGARISYSIWEVTGDAKAQDHLPV  151 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~------~~~--~~~~~~l~i~Dt~G~~~~~~~~~~  151 (268)
                      ....+||+++|.+|||||||++++.++.+...+.+|+|.++..+.      +.+  ++..+.+.+|||+|++.|..+...
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~  117 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQF  117 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHH
Confidence            456799999999999999999999999998889999998887552      122  344678999999999999999999


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcC
Q 041042          152 ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSA  231 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  231 (268)
                      +++++|++|+|||+++.   +.+..|+..+..+.++.|.||||||+|+.     ....+..+++.+++...+++++++||
T Consensus       118 ~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~~~~pvilV~NK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~~vSA  189 (535)
T 3dpu_A          118 FMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYGGKSPVIVVMNKIDEN-----PSYNIEQKKINERFPAIENRFHRISC  189 (535)
T ss_dssp             HHHSSEEEEEEECGGGG---GGHHHHHHHHHHHSSSCCEEEEECCTTTC-----TTCCCCHHHHHHHCGGGTTCEEECCC
T ss_pred             HccCCcEEEEEEeCCCc---hhHHHHHHHHHHhCCCCCEEEEEECCCcc-----cccccCHHHHHHHHHhcCCceEEEec
Confidence            99999999999998764   56678999999988777778999999973     12233467788888999999999999


Q ss_pred             CCCcCHHHHHHHHHHHHhcCcc
Q 041042          232 TYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      ++|.||+++|+.|.+.+.+.+.
T Consensus       190 ~~g~gi~eL~~~l~~~~~~~~~  211 (535)
T 3dpu_A          190 KNGDGVESIAKSLKSAVLHPDS  211 (535)
T ss_dssp             -----CTTHHHHHHHHHTCTTS
T ss_pred             CcccCHHHHHHHHHHHHhcccc
Confidence            9999999999999999987654

>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=99.94  E-value=5.1e-27  Score=187.11  Aligned_cols=153  Identities=16%  Similarity=0.167  Sum_probs=114.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc--------hhhhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH--------LPVAC  153 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~--------~~~~~  153 (268)
                      .+||+++|.+|||||||+++|.+..+. ....++++.++....+.+++..  +.+|||+|++.+...        ...++
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   81 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMP--LHIIDTAGLREASDEVERIGIERAWQEI   81 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEE--EEEEECCCCSCCSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCeE--EEEEECCCcccchhHHHHHHHHHHHHHH
Confidence            489999999999999999999987642 2334445566777788888754  789999998764321        12468


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      +++|++++|||+++..+++. ..|+..+..... +.|.|+|+||+|+...   . .        .+++..++++++|||+
T Consensus        82 ~~ad~~i~v~D~~~~~s~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~---~-~--------~~~~~~~~~~~~~SA~  148 (172)
T 2gj8_A           82 EQADRVLFMVDGTTTDAVDP-AEIWPEFIARLPAKLPITVVRNKADITGE---T-L--------GMSEVNGHALIRLSAR  148 (172)
T ss_dssp             HTCSEEEEEEETTTCCCCSH-HHHCHHHHHHSCTTCCEEEEEECHHHHCC---C-C--------EEEEETTEEEEECCTT
T ss_pred             HhCCEEEEEEECCCCCCHHH-HHHHHHHHHhcccCCCEEEEEECccCCcc---h-h--------hhhhccCCceEEEeCC
Confidence            99999999999999998874 578888777654 3455799999997211   0 0        1122356789999999


Q ss_pred             CCcCHHHHHHHHHHHHhc
Q 041042          233 YNINVNKILKFITAKLFD  250 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~  250 (268)
                      +|.|++++|++|.+.+..
T Consensus       149 ~g~gv~~l~~~l~~~~~~  166 (172)
T 2gj8_A          149 TGEGVDVLRNHLKQSMGF  166 (172)
T ss_dssp             TCTTHHHHHHHHHHHC--
T ss_pred             CCCCHHHHHHHHHHHhhh
Confidence            999999999999887644

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.93  E-value=1.8e-25  Score=180.43  Aligned_cols=159  Identities=15%  Similarity=0.173  Sum_probs=119.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC----------ccccccch
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG----------DAKAQDHL  149 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G----------~~~~~~~~  149 (268)
                      ....+||+++|.+|||||||+++|.+..+ ..+.++.+.+........+.   .+.+|||+|          ++.+..++
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~~~~~   95 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNRKI-AFVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLWKRLV   95 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTSCC-SCCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcCcc-ccccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHHHHHH
Confidence            44568999999999999999999999874 44555555554433333333   367999999          77788888


Q ss_pred             hhhhcCC---cEEEEEEeCCChhh--HHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh-C
Q 041042          150 PVACKDS---IAILFMFDLTSRCT--LKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-N  223 (268)
Q Consensus       150 ~~~~~~a---~~vilv~D~~~~~s--~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~  223 (268)
                      ..+++.+   |++++|+|+++..+  +..+..|+...     +.|.++|+||+|+   ..........+++.+++... +
T Consensus        96 ~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~-----~~p~i~v~nK~Dl---~~~~~~~~~~~~~~~~~~~~~~  167 (195)
T 3pqc_A           96 EDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL-----NIPFTIVLTKMDK---VKMSERAKKLEEHRKVFSKYGE  167 (195)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT-----TCCEEEEEECGGG---SCGGGHHHHHHHHHHHHHSSCC
T ss_pred             HHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc-----CCCEEEEEEChhc---CChHHHHHHHHHHHHHHhhcCC
Confidence            8888776   99999999987644  33444555543     4566899999997   33344445567778888774 4


Q ss_pred             CeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          224 ATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       224 ~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      ++++++||++|.||+++|++|.+.+.+
T Consensus       168 ~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          168 YTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             SCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             CceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            799999999999999999999988754

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.93  E-value=5.6e-26  Score=177.85  Aligned_cols=148  Identities=18%  Similarity=0.250  Sum_probs=105.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc-------ccchhhhhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA-------QDHLPVACKD  155 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~-------~~~~~~~~~~  155 (268)
                      .||+++|++|||||||+++|.++.+. ....++++.+.....+..++.  .+.+|||+|++.+       ...+..+++.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            69999999999999999999988753 233344455566666777765  5789999998873       4455678899


Q ss_pred             CcEEEEEEeCCChhhHHH--HHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEcCC
Q 041042          156 SIAILFMFDLTSRCTLKS--VIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSSAT  232 (268)
Q Consensus       156 a~~vilv~D~~~~~s~~~--~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~  232 (268)
                      +|++++|||+++..+...  +..|+..     .+.|.++|+||+|+.    +.     .+++.+++ .+++ +++++||+
T Consensus        80 ~~~~i~v~d~~~~~~~~~~~~~~~~~~-----~~~p~ilv~nK~Dl~----~~-----~~~~~~~~-~~~~~~~~~~Sa~  144 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQADYEVAEYLRR-----KGKPVILVATKVDDP----KH-----ELYLGPLY-GLGFGDPIPTSSE  144 (161)
T ss_dssp             CSEEEEEEESSSCCCHHHHHHHHHHHH-----HTCCEEEEEECCCSG----GG-----GGGCGGGG-GGSSCSCEECBTT
T ss_pred             CCEEEEEEECCCcccHhHHHHHHHHHh-----cCCCEEEEEECcccc----cc-----hHhHHHHH-hCCCCCeEEEecc
Confidence            999999999998654432  2233322     245668999999972    11     13344555 6777 89999999


Q ss_pred             CCcCHHHHHHHHHHHH
Q 041042          233 YNINVNKILKFITAKL  248 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i  248 (268)
                      +|.|++++|++|++.+
T Consensus       145 ~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          145 HARGLEELLEAIWERL  160 (161)
T ss_dssp             TTBSHHHHHHHHHHHC
T ss_pred             cCCChHHHHHHHHHhC
Confidence            9999999999998865

>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=99.93  E-value=1.9e-25  Score=189.49  Aligned_cols=156  Identities=15%  Similarity=0.160  Sum_probs=120.0

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc------hhhhh-
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH------LPVAC-  153 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~------~~~~~-  153 (268)
                      ...+||+++|++|||||||+++|++..+.....+++..+.....+..++  ..+.+|||+|++.+...      ...|+ 
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~e~v~~~~~~   80 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG--YTINLIDLPGTYSLGYSSIDEKIARDYLL   80 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSSCCSSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC--eEEEEEECCCcCccCCCCHHHHHHHHHHh
Confidence            3468999999999999999999999877555566555554444444444  67899999999887653      35666 


Q ss_pred             -cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          154 -KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       154 -~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                       ..+|++++|+|+++.++..   .|...+...  +.|.|+|+||+|+      ...+....++..+++.++++++++||+
T Consensus        81 ~~~~d~ii~V~D~t~~~~~~---~~~~~l~~~--~~pvilv~NK~Dl------~~~~~i~~~~~~l~~~lg~~vi~~SA~  149 (258)
T 3a1s_A           81 KGDADLVILVADSVNPEQSL---YLLLEILEM--EKKVILAMTAIDE------AKKTGMKIDRYELQKHLGIPVVFTSSV  149 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHHH---HHHHHHHTT--TCCEEEEEECHHH------HHHTTCCBCHHHHHHHHCSCEEECCTT
T ss_pred             hcCCCEEEEEeCCCchhhHH---HHHHHHHhc--CCCEEEEEECcCC------CCccchHHHHHHHHHHcCCCEEEEEee
Confidence             5899999999999876543   466666543  4566899999996      222222234788899999999999999


Q ss_pred             CCcCHHHHHHHHHHHHh
Q 041042          233 YNINVNKILKFITAKLF  249 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~  249 (268)
                      +|.|++++|+.+.+.+.
T Consensus       150 ~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          150 TGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             TCTTHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHhh
Confidence            99999999999998775

>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=99.93  E-value=8.4e-25  Score=190.20  Aligned_cols=176  Identities=13%  Similarity=0.126  Sum_probs=133.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCC-CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc----------cc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQ-GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ----------DH  148 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~----------~~  148 (268)
                      ....-.|+++|.+|||||||+|+|++..+.. ...+.+..+........+ ....+.+|||+|+..+.          ..
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~-~~~~i~lvDTPG~~~~~~~~~l~~~~~~~   85 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIP-NEAQIIFLDTPGIYEPKKSDVLGHSMVEI   85 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEET-TTEEEEEEECCCCCCCCTTCHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecC-CCCeEEEEECcCCCccccchhHHHHHHHH
Confidence            3445799999999999999999999988642 222212222222223333 14668899999986544          55


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC--CeE
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN--ATL  226 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--~~~  226 (268)
                      ...+++.+|++++|+|+++..++++...|++.+...  +.|.|+|+||+|+   ..  ......+.+..+.+.++  .++
T Consensus        86 ~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~--~~pvilV~NK~Dl---~~--~~~~~~~~~~~l~~~~~~~~~i  158 (308)
T 3iev_A           86 AKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPL--NKPVIVVINKIDK---IG--PAKNVLPLIDEIHKKHPELTEI  158 (308)
T ss_dssp             HHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGG--CCCEEEEEECGGG---SS--SGGGGHHHHHHHHHHCTTCCCE
T ss_pred             HHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhc--CCCEEEEEECccC---CC--CHHHHHHHHHHHHHhccCCCeE
Confidence            677889999999999999999999988888887763  4566899999996   21  23455677788888876  789


Q ss_pred             EEEcCCCCcCHHHHHHHHHHHHhcCccchhcccCCCC
Q 041042          227 FFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGE  263 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~i~~~~~~~~~~~~~~~  263 (268)
                      +++||++|.|++++|+.+.+.+.+.++..+.+...+.
T Consensus       159 ~~vSA~~g~gv~~L~~~l~~~l~~~~~~~~~~~~td~  195 (308)
T 3iev_A          159 VPISALKGANLDELVKTILKYLPEGEPLFPEDMITDL  195 (308)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHSCBCCCSSCTTCCBCC
T ss_pred             EEEeCCCCCCHHHHHHHHHHhCccCCCCCCcccccCC
Confidence            9999999999999999999999888776666555444

>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=99.92  E-value=1.6e-25  Score=191.33  Aligned_cols=153  Identities=18%  Similarity=0.134  Sum_probs=117.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc------cchhhhhc--
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ------DHLPVACK--  154 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~------~~~~~~~~--  154 (268)
                      .+||+++|++|||||||+++|++..+.....++  .++..+...++. ...+++|||+|++.+.      .+...|+.  
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg--~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~   79 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNWPG--VTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQ   79 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSC--CCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCCC--CcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcC
Confidence            489999999999999999999998754444453  344344555555 5679999999999876      45667776  


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      .+|++|+|||+++.+++   ..|..++..  .+.|.|+|+||+|+.      .......++..+++.++++++++||++|
T Consensus        80 ~~d~vi~V~D~t~~e~~---~~~~~~l~~--~~~p~ilv~NK~Dl~------~~~~~~~~~~~l~~~lg~~vi~~SA~~g  148 (272)
T 3b1v_A           80 RADSILNVVDATNLERN---LYLTTQLIE--TGIPVTIALNMIDVL------DGQGKKINVDKLSYHLGVPVVATSALKQ  148 (272)
T ss_dssp             CCSEEEEEEEGGGHHHH---HHHHHHHHH--TCSCEEEEEECHHHH------HHTTCCCCHHHHHHHHTSCEEECBTTTT
T ss_pred             CCCEEEEEecCCchHhH---HHHHHHHHh--cCCCEEEEEEChhhC------CcCCcHHHHHHHHHHcCCCEEEEEccCC
Confidence            69999999999986654   456666654  245668999999962      1222224567889999999999999999


Q ss_pred             cCHHHHHHHHHHHHh
Q 041042          235 INVNKILKFITAKLF  249 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~  249 (268)
                      .|++++|+++.+.+.
T Consensus       149 ~gi~el~~~i~~~~~  163 (272)
T 3b1v_A          149 TGVDQVVKKAAHTTT  163 (272)
T ss_dssp             BSHHHHHHHHHHSCT
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999999988654

>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=99.92  E-value=1.4e-25  Score=190.09  Aligned_cols=151  Identities=13%  Similarity=0.090  Sum_probs=120.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc----------chhhhh
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD----------HLPVAC  153 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~----------~~~~~~  153 (268)
                      .||+++|.+|||||||+|+|.+..+.....++++.+.....+.+++.  .+.+|||||+..+..          +...|+
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~   79 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVANAEGISQDEQIAAQSV   79 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC------CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccccccCCCHHHHHHHHHH
Confidence            48999999999999999999998876666777777777777777776  688999999988764          556777


Q ss_pred             --cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcC
Q 041042          154 --KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSA  231 (268)
Q Consensus       154 --~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  231 (268)
                        +++|++|+|+|+++.+++..+..|+.++     +.|.|+|+||+|+.      ...........+++.++++++++||
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l~~~l~~~-----~~pvilv~NK~Dl~------~~~~~~~~~~~l~~~lg~~vi~~SA  148 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYLTSQLFEL-----GKPVVVALNMMDIA------EHRGISIDTEKLESLLGCSVIPIQA  148 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHHHHHHTTS-----CSCEEEEEECHHHH------HHTTCEECHHHHHHHHCSCEEECBG
T ss_pred             hhCCCCEEEEEeeCCCchhHHHHHHHHHHc-----CCCEEEEEEChhcC------CcCCcHHHHHHHHHHcCCCEEEEEC
Confidence              8999999999999977766555544332     45668999999962      1222223356688889999999999


Q ss_pred             CCCcCHHHHHHHHHHH
Q 041042          232 TYNINVNKILKFITAK  247 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~  247 (268)
                      ++|.|++++|++|.+.
T Consensus       149 ~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          149 HKNIGIPALQQSLLHC  164 (256)
T ss_dssp             GGTBSHHHHHHHHHTC
T ss_pred             CCCCCHHHHHHHHHhh
Confidence            9999999999999876

>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=99.92  E-value=1.8e-25  Score=191.35  Aligned_cols=157  Identities=13%  Similarity=0.084  Sum_probs=121.0

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc----------chhh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD----------HLPV  151 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~----------~~~~  151 (268)
                      ..+||+++|.+|||||||+|+|++..+.....++++.+.....+..++.  .+.+|||+|+..+..          +...
T Consensus         2 ~~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~~--~~~liDtpG~~~~~~~~~~~~~~e~i~~~   79 (274)
T 3i8s_A            2 KKLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDH--QVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (274)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSSC--EEEEEECCCCSCSCC----CCHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCCC--ceEEEECcCCCccccccccCCHHHHHHHH
Confidence            3689999999999999999999998876666776666766666766665  467899999988763          2333


Q ss_pred             hh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEE
Q 041042          152 AC--KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFS  229 (268)
Q Consensus       152 ~~--~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  229 (268)
                      |+  +.+|++|+|+|+++.+++..+..|+.+.     +.|.|+|+||+|+      ............+++.++++++++
T Consensus        80 ~~~~~~~d~ii~VvD~~~~~~~~~~~~~l~~~-----~~p~ivv~NK~Dl------~~~~~~~~~~~~l~~~lg~~~i~~  148 (274)
T 3i8s_A           80 YILSGDADLLINVVDASNLERNLYLTLQLLEL-----GIPCIVALNMLDI------AEKQNIRIEIDALSARLGCPVIPL  148 (274)
T ss_dssp             HHHHTCCSEEEEEEEGGGHHHHHHHHHHHHHH-----TCCEEEEEECHHH------HHHTTEEECHHHHHHHHTSCEEEC
T ss_pred             HHhhcCCCEEEEEecCCChHHHHHHHHHHHhc-----CCCEEEEEECccc------hhhhhHHHHHHHHHHhcCCCEEEE
Confidence            43  7999999999999877665554444433     4566899999996      212222234577888999999999


Q ss_pred             cCCCCcCHHHHHHHHHHHHhcC
Q 041042          230 SATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ||++|.|++++|+.|.+.+.+.
T Consensus       149 SA~~g~gi~el~~~i~~~~~~~  170 (274)
T 3i8s_A          149 VSTRGRGIEALKLAIDRYKANE  170 (274)
T ss_dssp             CCGGGHHHHHHHHHHHTCCCCC
T ss_pred             EcCCCCCHHHHHHHHHHHHhcC
Confidence            9999999999999998876654

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.92  E-value=1.3e-24  Score=179.59  Aligned_cols=166  Identities=16%  Similarity=0.070  Sum_probs=111.3

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC-CeEEEEEEEeCCC----------ccccccch
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTG----------DAKAQDHL  149 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G----------~~~~~~~~  149 (268)
                      ...+||+|+|.+|||||||+++|++..+......+.|.+.......+. .....+.+|||+|          ++.+..+.
T Consensus        27 ~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~  106 (223)
T 4dhe_A           27 TVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLL  106 (223)
T ss_dssp             CCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHH
Confidence            346899999999999999999999987322233333333333334444 3446688999999          45556677


Q ss_pred             hhhhcC---CcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-----
Q 041042          150 PVACKD---SIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-----  221 (268)
Q Consensus       150 ~~~~~~---a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-----  221 (268)
                      ..|++.   +|++++|+|+++..+.. -..|+..+..  ...|.|+|+||+|+   ..........++..+....     
T Consensus       107 ~~~~~~~~~~d~vi~v~d~~~~~~~~-~~~~~~~l~~--~~~p~i~v~nK~Dl---~~~~~~~~~~~~~~~~l~~~~~~~  180 (223)
T 4dhe_A          107 SSYLQTRPQLCGMILMMDARRPLTEL-DRRMIEWFAP--TGKPIHSLLTKCDK---LTRQESINALRATQKSLDAYRDAG  180 (223)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHH-HHHHHHHHGG--GCCCEEEEEECGGG---SCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHhcCcCcCEEEEEEeCCCCCCHH-HHHHHHHHHh--cCCCEEEEEecccc---CChhhHHHHHHHHHHHHHhhhhcc
Confidence            777766   77899999998754422 2345555544  34566899999997   2222111123333333333     


Q ss_pred             --hCCeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          222 --LNATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       222 --~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                        .+++++++||++|.|++++|++|.+.+....
T Consensus       181 ~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~~  213 (223)
T 4dhe_A          181 YAGKLTVQLFSALKRTGLDDAHALIESWLRPAA  213 (223)
T ss_dssp             CCSCEEEEEEBTTTTBSHHHHHHHHHHHHC---
T ss_pred             cCCCCeEEEeecCCCcCHHHHHHHHHHhcCccC
Confidence              5678999999999999999999999887654

>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=99.91  E-value=4.3e-24  Score=182.43  Aligned_cols=159  Identities=15%  Similarity=0.138  Sum_probs=124.8

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc------chhhhh--
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD------HLPVAC--  153 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~------~~~~~~--  153 (268)
                      +.+||+++|++|||||||+++|.+..+.....++++.+.....+..++..  +.+|||+|+..+..      +...|+  
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~~--~~l~DtpG~~~~~~~~~~~~~~~~~~~~   79 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREKE--FLVVDLPGIYSLTAHSIDELIARNFILD   79 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTEE--EEEEECCCCSCCCSSCHHHHHHHHHHHT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCce--EEEEeCCCccccccCCHHHHHHHHhhhc
Confidence            35899999999999999999999988766677777777777777777755  88999999998776      566676  


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCC
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATY  233 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  233 (268)
                      .++|++++|+|+++.+   ....|...+.... ..|.++|+||+|+      ........+...+++.++++++++||++
T Consensus        80 ~~~d~vi~v~D~~~~~---~~~~~~~~~~~~~-~~p~ilv~NK~Dl------~~~~~~~~~~~~l~~~lg~~~~~~Sa~~  149 (271)
T 3k53_A           80 GNADVIVDIVDSTCLM---RNLFLTLELFEME-VKNIILVLNKFDL------LKKKGAKIDIKKMRKELGVPVIPTNAKK  149 (271)
T ss_dssp             TCCSEEEEEEEGGGHH---HHHHHHHHHHHTT-CCSEEEEEECHHH------HHHHTCCCCHHHHHHHHSSCEEECBGGG
T ss_pred             cCCcEEEEEecCCcch---hhHHHHHHHHhcC-CCCEEEEEEChhc------CcccccHHHHHHHHHHcCCcEEEEEeCC
Confidence            6899999999998854   2334444444432 2556799999996      2222222337788899999999999999


Q ss_pred             CcCHHHHHHHHHHHHhcCc
Q 041042          234 NINVNKILKFITAKLFDIP  252 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~~~  252 (268)
                      |.|++++|+.+.+.+....
T Consensus       150 g~gi~~l~~~i~~~~~~~~  168 (271)
T 3k53_A          150 GEGVEELKRMIALMAEGKV  168 (271)
T ss_dssp             TBTHHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHhccc
Confidence            9999999999999876553

>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=99.91  E-value=5.3e-25  Score=181.44  Aligned_cols=148  Identities=17%  Similarity=0.145  Sum_probs=107.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCC---CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcC-
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQ---GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKD-  155 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~-  155 (268)
                      ....+||+++|++|||||||+++|.+..+..   .+.++++.++         ..+.+++|||+|++.+...+..|++. 
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~~   79 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKTR   79 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHHHHHHHHhc
Confidence            3446899999999999999999999987654   3455554443         34568899999999999999999887 


Q ss_pred             ---CcEEEEEEeCC-ChhhHHHHHHHHHHHHHh----C-CCCceEEEEeCCCCCCCCCcc-chhchHHHHHHHHHHhCCe
Q 041042          156 ---SIAILFMFDLT-SRCTLKSVIRWYQQARKC----N-QTAIPIIIGTKFDDFIQLPID-LQWTIASQARAYAKALNAT  225 (268)
Q Consensus       156 ---a~~vilv~D~~-~~~s~~~~~~~~~~i~~~----~-~~~~~ilvgnK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~  225 (268)
                         +|++|+|||++ +.++|..+..|+..+...    . .+.|.+||+||+|+....... ......+++..++...++.
T Consensus        80 ~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~  159 (218)
T 1nrj_B           80 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKS  159 (218)
T ss_dssp             GGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHhcc
Confidence               89999999999 889999999998888664    2 345557999999974221100 1112256678888888899


Q ss_pred             EEEEcCCCCcC
Q 041042          226 LFFSSATYNIN  236 (268)
Q Consensus       226 ~~~~Sa~~~~~  236 (268)
                      ++++||++|.+
T Consensus       160 ~~~~Sa~~~~~  170 (218)
T 1nrj_B          160 LNEVERKINEE  170 (218)
T ss_dssp             HHC--------
T ss_pred             ccccccccccc
Confidence            99999999875

>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=99.91  E-value=2.4e-23  Score=180.27  Aligned_cols=167  Identities=15%  Similarity=0.134  Sum_probs=114.5

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCC-CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc--------cccchhh
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQ-GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK--------AQDHLPV  151 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--------~~~~~~~  151 (268)
                      .+..+|+++|.+|||||||+|+|++..+.. ...+.+..+.....+..  ....+++|||||+..        +......
T Consensus         5 ~~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~--~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~   82 (301)
T 1wf3_A            5 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTE--GRRQIVFVDTPGLHKPMDALGEFMDQEVYE   82 (301)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE--TTEEEEEEECCCCCCCCSHHHHHHHHHHHH
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEe--CCcEEEEecCccccchhhHHHHHHHHHHHH
Confidence            456789999999999999999999988642 22222222222222222  346789999999876        3445667


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHH-HHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEc
Q 041042          152 ACKDSIAILFMFDLTSRCTLKSVIRWY-QQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSS  230 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~~~~~~-~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  230 (268)
                      +++.+|++++|||+++..+..  ..|+ +.+....++.|.|+|+||+|+.   ..  .....+.++.+  ....+++++|
T Consensus        83 ~l~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~~~~~p~ilV~NK~Dl~---~~--~~~~~~~~~~~--~~~~~~~~iS  153 (301)
T 1wf3_A           83 ALADVNAVVWVVDLRHPPTPE--DELVARALKPLVGKVPILLVGNKLDAA---KY--PEEAMKAYHEL--LPEAEPRMLS  153 (301)
T ss_dssp             HTSSCSEEEEEEETTSCCCHH--HHHHHHHHGGGTTTSCEEEEEECGGGC---SS--HHHHHHHHHHT--STTSEEEECC
T ss_pred             HHhcCCEEEEEEECCCCCChH--HHHHHHHHHhhcCCCCEEEEEECcccC---Cc--hHHHHHHHHHh--cCcCcEEEEe
Confidence            899999999999999875544  3444 5555544455668999999972   11  11022333333  1235789999


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCccchhcc
Q 041042          231 ATYNINVNKILKFITAKLFDIPWTLERN  258 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~~~~~~~~~~  258 (268)
                      |++|.|++++|+.|.+.+.+.++..+.+
T Consensus       154 A~~g~gv~~l~~~l~~~l~~~~~~y~~~  181 (301)
T 1wf3_A          154 ALDERQVAELKADLLALMPEGPFFYPED  181 (301)
T ss_dssp             TTCHHHHHHHHHHHHTTCCBCCCSSCTT
T ss_pred             CCCCCCHHHHHHHHHHhcccCCCCCCcc
Confidence            9999999999999999887766555443

>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=99.91  E-value=6.2e-24  Score=186.76  Aligned_cols=157  Identities=17%  Similarity=0.157  Sum_probs=119.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCC-CC-CCcceeeEEEEEEECCeEEEEEEEeCCCcc----ccccchhhhhcC---
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQG-GS-PGEGLNMMDKTLLVRGARISYSIWEVTGDA----KAQDHLPVACKD---  155 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~-~~-~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~----~~~~~~~~~~~~---  155 (268)
                      +|+|+|.+|||||||+++|.+..+... +. .|...+  ...+.+++ ...+.+|||+|+.    .+..+...|++.   
T Consensus       160 ~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~--~g~v~~~~-~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~  236 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPN--LGMVETDD-GRSFVMADLPGLIEGAHQGVGLGHQFLRHIER  236 (342)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCC--EEEEECSS-SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHH
T ss_pred             eeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCce--EEEEEeCC-CceEEEecCCCCcccccccchhHHHHHHHHHh
Confidence            588999999999999999998764322 22 233222  23445554 2368899999964    345566667654   


Q ss_pred             CcEEEEEEeCCC---hhhHHHHHHHHHHHHHhCC---CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC--CeEE
Q 041042          156 SIAILFMFDLTS---RCTLKSVIRWYQQARKCNQ---TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN--ATLF  227 (268)
Q Consensus       156 a~~vilv~D~~~---~~s~~~~~~~~~~i~~~~~---~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--~~~~  227 (268)
                      ++++|+|+|+++   +++++.+..|+.++..+.+   ..|.+||+||+|+.   ..      .+...++++.++  ++++
T Consensus       237 ~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~---~~------~e~~~~l~~~l~~~~~v~  307 (342)
T 1lnz_A          237 TRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMP---EA------AENLEAFKEKLTDDYPVF  307 (342)
T ss_dssp             CCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTST---TH------HHHHHHHHHHCCSCCCBC
T ss_pred             ccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCC---CC------HHHHHHHHHHhhcCCCEE
Confidence            999999999999   8899999999999998763   45557999999962   11      245566777776  7899


Q ss_pred             EEcCCCCcCHHHHHHHHHHHHhcCcc
Q 041042          228 FSSATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       228 ~~Sa~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      ++||+++.|++++|++|.+.+.+.+.
T Consensus       308 ~iSA~tg~gi~eL~~~l~~~l~~~~~  333 (342)
T 1lnz_A          308 PISAVTREGLRELLFEVANQLENTPE  333 (342)
T ss_dssp             CCSSCCSSTTHHHHHHHHHHHTSCCC
T ss_pred             EEECCCCcCHHHHHHHHHHHHhhCcc
Confidence            99999999999999999999987654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.90  E-value=3.4e-24  Score=194.82  Aligned_cols=161  Identities=16%  Similarity=0.185  Sum_probs=114.8

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCc----------cccccch
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD----------AKAQDHL  149 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~----------~~~~~~~  149 (268)
                      ...+||+++|.+|||||||+|+|++..+. ....++++.+.....+..++..  +++|||+|+          |.|..+.
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~~--~~l~DT~G~~~~~~~~~~~e~~~~~~  250 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQE--FVIVDTAGMRKKGKVYETTEKYSVLR  250 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTEE--EEETTHHHHTCBTTBCCCCSHHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCeE--EEEEECCCcCcCccccchHHHHHHHH
Confidence            34699999999999999999999998753 3444545556666677777765  789999998          4454444


Q ss_pred             h-hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHH-----HHHHHHHhC
Q 041042          150 P-VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQ-----ARAYAKALN  223 (268)
Q Consensus       150 ~-~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~  223 (268)
                      . .+++.+|++++|||+++..++++. .|+..+..  .+.+.|||+||+|+.   ..  .....++     .+.++...+
T Consensus       251 ~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~--~~~~iiiv~NK~Dl~---~~--~~~~~~~~~~~~~~~l~~~~~  322 (436)
T 2hjg_A          251 ALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE--AGKAVVIVVNKWDAV---DK--DESTMKEFEENIRDHFQFLDY  322 (436)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH--TTCEEEEEEECGGGS---CC--CTTHHHHHHHHHHHHCGGGTT
T ss_pred             HHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH--cCCcEEEEEECccCC---Cc--chHHHHHHHHHHHHhcccCCC
Confidence            3 478899999999999999888876 57777654  345567999999973   21  1111122     222333347


Q ss_pred             CeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          224 ATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       224 ~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ++++++||++|.|++++|+.+.+.+.+.
T Consensus       323 ~~~~~~SA~tg~~v~~l~~~i~~~~~~~  350 (436)
T 2hjg_A          323 APILFMSALTKKRIHTLMPAIIKASENH  350 (436)
T ss_dssp             SCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             CCEEEEecccCCCHHHHHHHHHHHHHHh
Confidence            8999999999999999999998877643

>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=99.89  E-value=8.9e-23  Score=186.71  Aligned_cols=156  Identities=14%  Similarity=0.215  Sum_probs=97.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccch--------hhhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHL--------PVAC  153 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~--------~~~~  153 (268)
                      .+||+++|.+|||||||+|+|.+... .....++++.++....+.+++.  .+.+|||+|++.+....        ..++
T Consensus       233 ~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g~--~l~liDT~G~~~~~~~ve~~gi~~~~~~~  310 (476)
T 3gee_A          233 GVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDKT--MFRLTDTAGLREAGEEIEHEGIRRSRMKM  310 (476)
T ss_dssp             CEEEEEECCTTSSHHHHHHHCC------------------CEEEEETTE--EEEEEC--------------------CCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCe--EEEEEECCCCCcchhHHHHHHHHHHHhhc
Confidence            58999999999999999999998753 2344455556666677777774  58899999998765443        4478


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCC
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATY  233 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  233 (268)
                      +.+|++|+|||+++..+++.+..+...+.... +.|.|+|+||+|+.   ...   ..  ..+.+.+....+++++||++
T Consensus       311 ~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~-~~piIvV~NK~Dl~---~~~---~~--~~~~l~~~~~~~~i~vSAkt  381 (476)
T 3gee_A          311 AEADLILYLLDLGTERLDDELTEIRELKAAHP-AAKFLTVANKLDRA---ANA---DA--LIRAIADGTGTEVIGISALN  381 (476)
T ss_dssp             SSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT-TSEEEEEEECTTSC---TTT---HH--HHHHHHHHHTSCEEECBTTT
T ss_pred             ccCCEEEEEEECCCCcchhhhHHHHHHHHhcC-CCCEEEEEECcCCC---Ccc---ch--hHHHHHhcCCCceEEEEECC
Confidence            99999999999999988864443333333322 45557999999972   211   11  12344544347899999999


Q ss_pred             CcCHHHHHHHHHHHHh
Q 041042          234 NINVNKILKFITAKLF  249 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~  249 (268)
                      |.|++++|++|.+.+.
T Consensus       382 g~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          382 GDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             TBSHHHHHHHHTHHHH
T ss_pred             CCCHHHHHHHHHHHHh
Confidence            9999999999999887

>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=99.89  E-value=5.7e-23  Score=187.79  Aligned_cols=162  Identities=15%  Similarity=0.182  Sum_probs=117.5

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC-CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC----------ccccccch
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE-KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG----------DAKAQDHL  149 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G----------~~~~~~~~  149 (268)
                      ...+||+++|.+|||||||+++|.+.. ......++++.+.....+..++.  .+++|||+|          ++.|..+.
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  270 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  270 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHHH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHHH
Confidence            446899999999999999999999775 33344555566666667777776  588999999          67777666


Q ss_pred             hh-hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh-----C
Q 041042          150 PV-ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-----N  223 (268)
Q Consensus       150 ~~-~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-----~  223 (268)
                      .. +++.+|++|+|+|+++..+.. ...|...+..  .+.+.|||+||+|+.   .  ......+++.+.+++.     +
T Consensus       271 ~~~~~~~ad~~llviD~~~~~~~~-~~~~~~~~~~--~~~~~ilv~NK~Dl~---~--~~~~~~~~~~~~~~~~~~~~~~  342 (456)
T 4dcu_A          271 ALKAIDRSEVVAVVLDGEEGIIEQ-DKRIAGYAHE--AGKAVVIVVNKWDAV---D--KDESTMKEFEENIRDHFQFLDY  342 (456)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHH-HHHHHHHHHH--TTCEEEEEEECGGGS---C--CCSSHHHHHHHHHHHHCGGGTT
T ss_pred             HHHHHhhCCEEEEEEeCCCCcCHH-HHHHHHHHHH--cCCCEEEEEEChhcC---C--CchHHHHHHHHHHHHhcccCCC
Confidence            54 789999999999998754432 3455555554  345668999999973   1  1233455555555554     6


Q ss_pred             CeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          224 ATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       224 ~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      ++++++||++|.||+++|+.+.+.+.+..
T Consensus       343 ~~~~~~SA~~g~gv~~l~~~i~~~~~~~~  371 (456)
T 4dcu_A          343 APILFMSALTKKRIHTLMPAIIKASENHS  371 (456)
T ss_dssp             SCEEECCTTTCTTGGGHHHHHHHHHHHHT
T ss_pred             CCEEEEcCCCCcCHHHHHHHHHHHHHHhc
Confidence            89999999999999999999998775443

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.88  E-value=1.4e-23  Score=189.10  Aligned_cols=159  Identities=14%  Similarity=0.095  Sum_probs=115.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc-------hhh
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH-------LPV  151 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-------~~~  151 (268)
                      ....+||+++|..|+|||||+++|++..+. ....+++..+...+.+.+.+.. .+.+|||+|++.+..+       ...
T Consensus        31 ~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~-~l~liDTpG~~d~~~l~~~~~~~~~~  109 (423)
T 3qq5_A           31 AGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIG-PVTLVDTPGLDDVGELGRLRVEKARR  109 (423)
T ss_dssp             -CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTTE-EEEEEECSSTTCCCTTCCCCHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCC-eEEEEECcCCCcccchhHHHHHHHHH
Confidence            445799999999999999999999998763 2333444455555666666542 6889999999988665       345


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcC
Q 041042          152 ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSA  231 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  231 (268)
                      +++.+|++|+|||++..+   ....|+..+...  +.|+|+|+||+|+.   ... .   .+..+++++.++++++++||
T Consensus       110 ~l~~aD~vllVvD~~~~~---~~~~~l~~l~~~--~~piIvV~NK~Dl~---~~~-~---~~~~~~l~~~~g~~v~~vSA  177 (423)
T 3qq5_A          110 VFYRADCGILVTDSAPTP---YEDDVVNLFKEM--EIPFVVVVNKIDVL---GEK-A---EELKGLYESRYEAKVLLVSA  177 (423)
T ss_dssp             HHTSCSEEEEECSSSCCH---HHHHHHHHHHHT--TCCEEEECCCCTTT---TCC-C---THHHHHSSCCTTCCCCCCSS
T ss_pred             HHhcCCEEEEEEeCCChH---HHHHHHHHHHhc--CCCEEEEEeCcCCC---Ccc-H---HHHHHHHHHHcCCCEEEEEC
Confidence            789999999999994333   335677776665  45668999999973   211 1   15667778888999999999


Q ss_pred             CCCcCHHHHHHHHHHHHhcC
Q 041042          232 TYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ++|.|++++|+.|.+.+.+.
T Consensus       178 ktg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          178 LQKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             CCTTSTTTHHHHHHHHSCCC
T ss_pred             CCCCCHHHHHHHHHHhhhhh
Confidence            99999999999999998554

>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=99.88  E-value=3.6e-22  Score=181.63  Aligned_cols=152  Identities=18%  Similarity=0.246  Sum_probs=105.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc---------cccchhhhh
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK---------AQDHLPVAC  153 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~---------~~~~~~~~~  153 (268)
                      -+|+++|.+|||||||+|+|++.... ....++++.+.....+.+++..  +++|||+|++.         +......++
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~~--~~l~DT~G~~~~~~~~~~~~~~~~~~~~~   79 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKT--FKLVDTCGVFDNPQDIISQKMKEVTLNMI   79 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEE--EEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCeE--EEEEECCCccccccchHHHHHHHHHHHHH
Confidence            38999999999999999999988742 3445555566666777788765  68899999764         234566789


Q ss_pred             cCCcEEEEEEeCCChhhHHH--HHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHH-HHHHHHhCC-eEEEE
Q 041042          154 KDSIAILFMFDLTSRCTLKS--VIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQA-RAYAKALNA-TLFFS  229 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~--~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~  229 (268)
                      ++||++|+|||+++..+..+  +..|+..     .+.|.+||+||+|+      ...  ...++ .++. ..++ +++++
T Consensus        80 ~~ad~il~V~D~~~~~~~~d~~i~~~l~~-----~~~p~ilv~NK~D~------~~~--~~~~~~~~~~-~lg~~~~~~i  145 (439)
T 1mky_A           80 READLVLFVVDGKRGITKEDESLADFLRK-----STVDTILVANKAEN------LRE--FEREVKPELY-SLGFGEPIPV  145 (439)
T ss_dssp             TTCSEEEEEEETTTCCCHHHHHHHHHHHH-----HTCCEEEEEESCCS------HHH--HHHHTHHHHG-GGSSCSCEEC
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHHHHH-----cCCCEEEEEeCCCC------ccc--cHHHHHHHHH-hcCCCCEEEE
Confidence            99999999999987655433  3344432     14566899999996      111  11223 4444 4676 78999


Q ss_pred             cCCCCcCHHHHHHHHHHHHhcC
Q 041042          230 SATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ||++|.|++++|+.+.+.+.+.
T Consensus       146 SA~~g~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          146 SAEHNINLDTMLETIIKKLEEK  167 (439)
T ss_dssp             BTTTTBSHHHHHHHHHHHHHHT
T ss_pred             eccCCCCHHHHHHHHHHhcccc
Confidence            9999999999999999988654

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.88  E-value=1.2e-21  Score=173.68  Aligned_cols=160  Identities=14%  Similarity=0.136  Sum_probs=118.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc---------chhhhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD---------HLPVAC  153 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~---------~~~~~~  153 (268)
                      .++|+++|.+|||||||+++|.+..+.....+....+.....+..+  ...+.+|||+|...+..         ....+.
T Consensus       167 ~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~  244 (357)
T 2e87_A          167 IPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDG--YFRYQIIDTPGLLDRPISERNEIEKQAILALR  244 (357)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEET--TEEEEEEECTTTSSSCSTTSCHHHHHHHHGGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEec--CceEEEEeCCCccccchhhhhHHHHHHHHHHH
Confidence            4799999999999999999999876533222222222322333333  35688999999755321         112345


Q ss_pred             cCCcEEEEEEeCCChh--hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcC
Q 041042          154 KDSIAILFMFDLTSRC--TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSA  231 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~--s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  231 (268)
                      ..+|++++|+|+++..  +++....|+..+.....+.|.|+|+||+|+.    .  .. ..+++.++++..+++++++||
T Consensus       245 ~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~piilV~NK~Dl~----~--~~-~~~~~~~~~~~~~~~~~~iSA  317 (357)
T 2e87_A          245 YLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPFLVVINKIDVA----D--EE-NIKRLEKFVKEKGLNPIKISA  317 (357)
T ss_dssp             GTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCEEEEECCTTTC----C--HH-HHHHHHHHHHHTTCCCEECBT
T ss_pred             hcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCEEEEEECcccC----C--hH-HHHHHHHHHHhcCCCeEEEeC
Confidence            6799999999999887  7888889999988765556668999999962    1  11 124566777788999999999


Q ss_pred             CCCcCHHHHHHHHHHHHhcC
Q 041042          232 TYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ++|+|++++|++|.+.+...
T Consensus       318 ~~g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          318 LKGTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             TTTBTHHHHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHHHHH
Confidence            99999999999999887554

>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=99.87  E-value=1.1e-21  Score=180.13  Aligned_cols=159  Identities=13%  Similarity=0.130  Sum_probs=114.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC-------CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhh
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE-------KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVA  152 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~-------~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~  152 (268)
                      .+..++|+++|..++|||||+++|.+..       +.....+.+..+.....+.+++  ..+.+|||+|+++|......+
T Consensus        16 ~m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~~~~~~   93 (482)
T 1wb1_A           16 DFKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSA   93 (482)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHHHHHHH
Confidence            4567999999999999999999999876       2223333232233223444555  568899999999998888889


Q ss_pred             hcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh----CCe
Q 041042          153 CKDSIAILFMFDLTS---RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL----NAT  225 (268)
Q Consensus       153 ~~~a~~vilv~D~~~---~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~----~~~  225 (268)
                      +..+|++|+|+|+++   .++++.+.    .+...  +.|.|+|+||+|+   ...+......+++.++++..    +++
T Consensus        94 ~~~aD~~ilVvda~~g~~~qt~e~l~----~~~~~--~ip~IvviNK~Dl---~~~~~~~~~~~~l~~~l~~~~~~~~~~  164 (482)
T 1wb1_A           94 ADIIDLALIVVDAKEGPKTQTGEHML----ILDHF--NIPIIVVITKSDN---AGTEEIKRTEMIMKSILQSTHNLKNSS  164 (482)
T ss_dssp             TTSCCEEEEEEETTTCSCHHHHHHHH----HHHHT--TCCBCEEEECTTS---SCHHHHHHHHHHHHHHHHHSSSGGGCC
T ss_pred             HhhCCEEEEEEecCCCccHHHHHHHH----HHHHc--CCCEEEEEECCCc---ccchhHHHHHHHHHHHHhhhcccccce
Confidence            999999999999988   45554433    23322  3455899999997   33222334466777777766    678


Q ss_pred             EEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          226 LFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      ++++||++|.|++++++.|.+.+.
T Consensus       165 ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          165 IIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHHhhc
Confidence            999999999999999999998775

>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=99.87  E-value=1.3e-22  Score=178.86  Aligned_cols=122  Identities=14%  Similarity=0.154  Sum_probs=93.1

Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCC----------ChhhHHHHHHHHHHHHHhC--CCCceEEEEeCC
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLT----------SRCTLKSVIRWYQQARKCN--QTAIPIIIGTKF  197 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~----------~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~  197 (268)
                      +.+.+++|||+||++|+.++..||++++++|+|||++          +.++|+++..|++.+....  ++.|+||||||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            6789999999999999999999999999999999998          7889999999999887642  455667999999


Q ss_pred             CCCCC-C-----------Cccc----hhchHHHHHHHHHH----------------hCCeEEEEcCCCCcCHHHHHHHHH
Q 041042          198 DDFIQ-L-----------PIDL----QWTIASQARAYAKA----------------LNATLFFSSATYNINVNKILKFIT  245 (268)
Q Consensus       198 Dl~~~-~-----------~~~~----~~~~~~~~~~~~~~----------------~~~~~~~~Sa~~~~~i~~~f~~l~  245 (268)
                      ||... +           ++-.    .....+++.+++..                ..+.+++|||+++.||+++|+++.
T Consensus       261 DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~  340 (354)
T 2xtz_A          261 DIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVD  340 (354)
T ss_dssp             HHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             chhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHH
Confidence            97310 0           0000    01125667777543                123468999999999999999999


Q ss_pred             HHHhcC
Q 041042          246 AKLFDI  251 (268)
Q Consensus       246 ~~i~~~  251 (268)
                      +.+.+.
T Consensus       341 ~~I~~~  346 (354)
T 2xtz_A          341 ETLRRR  346 (354)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988754

>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=99.87  E-value=3.8e-21  Score=173.04  Aligned_cols=163  Identities=13%  Similarity=0.103  Sum_probs=118.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEE---------------------E---CCeEEEEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLL---------------------V---RGARISYS  135 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~---------------------~---~~~~~~l~  135 (268)
                      ....+||+++|.+|+|||||+++|.+......    .+  +....+.                     .   ......+.
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~----~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITGIWTSKK----LG--YAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRIS   78 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHSCCCCSS----SE--EEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEE
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCcccccc----cC--ccccceeeccccccccceecccccccccccccccccceEE
Confidence            34469999999999999999999988543211    11  1101100                     0   11236799


Q ss_pred             EEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHH
Q 041042          136 IWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQA  215 (268)
Q Consensus       136 i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~  215 (268)
                      +|||+|+++|......++..+|++|+|+|+++..++....+|+..+..... .+.|+|+||+|+   ...+......+++
T Consensus        79 iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~-~~iivviNK~Dl---~~~~~~~~~~~~i  154 (403)
T 3sjy_A           79 FIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGV-KNLIIVQNKVDV---VSKEEALSQYRQI  154 (403)
T ss_dssp             EEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTC-CCEEEEEECGGG---SCHHHHHHHHHHH
T ss_pred             EEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCC-CCEEEEEECccc---cchHHHHHHHHHH
Confidence            999999999999999999999999999999998778888888877766542 355799999997   2222222234444


Q ss_pred             HHHHHHh---CCeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          216 RAYAKAL---NATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       216 ~~~~~~~---~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      .++.+..   +++++++||++|.|++++|+.|.+.+....
T Consensus       155 ~~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~~~~  194 (403)
T 3sjy_A          155 KQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKTPY  194 (403)
T ss_dssp             HHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCCC
T ss_pred             HHHHHhhCCCCCEEEEEECCCCcChHHHHHHHHHhCCCCC
Confidence            4444433   578999999999999999999998775543

>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=99.87  E-value=3e-22  Score=176.63  Aligned_cols=128  Identities=16%  Similarity=0.221  Sum_probs=99.9

Q ss_pred             EEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHHh--CCCCce
Q 041042          123 KTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTS----------RCTLKSVIRWYQQARKC--NQTAIP  190 (268)
Q Consensus       123 ~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~----------~~s~~~~~~~~~~i~~~--~~~~~~  190 (268)
                      ..+.++  .+.+++|||+||+.++.+|..||++++++|+|||+++          ..+|++...|++.+...  ..+.|+
T Consensus       186 ~~~~~~--~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~pi  263 (353)
T 1cip_A          186 THFTFK--DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSI  263 (353)
T ss_dssp             EEEEET--TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEE
T ss_pred             EEEeeC--CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcE
Confidence            334444  5779999999999999999999999999999999999          56799999999888764  245566


Q ss_pred             EEEEeCCCCCCC-C---------CccchhchHHHHHHHHH-----------HhCCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          191 IIIGTKFDDFIQ-L---------PIDLQWTIASQARAYAK-----------ALNATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       191 ilvgnK~Dl~~~-~---------~~~~~~~~~~~~~~~~~-----------~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      ||||||+||... +         ++-...+..+++..++.           ..++.+++|||++|.||+++|+++.+.+.
T Consensus       264 iLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~  343 (353)
T 1cip_A          264 ILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVII  343 (353)
T ss_dssp             EEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             EEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHH
Confidence            799999997210 0         00000234678888887           35678999999999999999999999887


Q ss_pred             cCc
Q 041042          250 DIP  252 (268)
Q Consensus       250 ~~~  252 (268)
                      +..
T Consensus       344 ~~~  346 (353)
T 1cip_A          344 KNN  346 (353)
T ss_dssp             HHC
T ss_pred             HHH
Confidence            543

>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=99.87  E-value=5e-22  Score=181.91  Aligned_cols=153  Identities=14%  Similarity=0.255  Sum_probs=114.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc-cccc--------chhhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA-KAQD--------HLPVA  152 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~-~~~~--------~~~~~  152 (268)
                      .+||+++|.+|||||||+|+|.+.++ .....++++.++....+.+++..  +.+|||+|++ .+..        ....+
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g~~--~~l~DTaG~~~~~~~~ve~~gi~~~~~~  320 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGIL--FRIVDTAGVRSETNDLVERLGIERTLQE  320 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEE--EEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCCeE--EEEEECCCccccchhhHHHHHHHHHHHH
Confidence            38999999999999999999998763 23444545566767778887754  7899999988 6542        23467


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          153 CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      ++.+|++|+|||+++..+++... +++.+    .+.|.|+|+||+|+...       ...+++.+++. .+++++++||+
T Consensus       321 ~~~aD~vl~VvD~s~~~s~~~~~-il~~l----~~~piivV~NK~DL~~~-------~~~~~~~~~~~-~~~~~i~iSAk  387 (482)
T 1xzp_A          321 IEKADIVLFVLDASSPLDEEDRK-ILERI----KNKRYLVVINKVDVVEK-------INEEEIKNKLG-TDRHMVKISAL  387 (482)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHHH-HHHHH----TTSSEEEEEEECSSCCC-------CCHHHHHHHHT-CSTTEEEEEGG
T ss_pred             hhcccEEEEEecCCCCCCHHHHH-HHHHh----cCCCEEEEEECcccccc-------cCHHHHHHHhc-CCCcEEEEECC
Confidence            89999999999999988887643 33333    35566899999997321       12234444432 45789999999


Q ss_pred             CCcCHHHHHHHHHHHHhc
Q 041042          233 YNINVNKILKFITAKLFD  250 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~  250 (268)
                      +|.|++++|++|.+.+..
T Consensus       388 tg~Gi~eL~~~l~~~~~~  405 (482)
T 1xzp_A          388 KGEGLEKLEESIYRETQE  405 (482)
T ss_dssp             GTCCHHHHHHHHHHHTHH
T ss_pred             CCCCHHHHHHHHHHHHhh
Confidence            999999999999987663

>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=99.86  E-value=1.5e-21  Score=169.98  Aligned_cols=136  Identities=14%  Similarity=0.195  Sum_probs=101.0

Q ss_pred             CCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCC----------ChhhHHHHHHHHHHHH
Q 041042          113 SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLT----------SRCTLKSVIRWYQQAR  182 (268)
Q Consensus       113 ~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~----------~~~s~~~~~~~~~~i~  182 (268)
                      .+|+|...  ..+.++  .+.+++|||+||++++.+|.+||++++++|+|||++          +.++|++...|++.+.
T Consensus       152 ~~TiGi~~--~~~~~~--~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~  227 (327)
T 3ohm_A          152 VPTTGIIE--YPFDLQ--SVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTII  227 (327)
T ss_dssp             CCCCSEEE--EEEEET--TEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHH
T ss_pred             CceeeEEE--EEEEee--ceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHh
Confidence            34455432  334444  478999999999999999999999999999999665          6678888888888876


Q ss_pred             HhC--CCCceEEEEeCCCCCC-CC---------Cccc-hhchHHHHHHHH----------HHhCCeEEEEcCCCCcCHHH
Q 041042          183 KCN--QTAIPIIIGTKFDDFI-QL---------PIDL-QWTIASQARAYA----------KALNATLFFSSATYNINVNK  239 (268)
Q Consensus       183 ~~~--~~~~~ilvgnK~Dl~~-~~---------~~~~-~~~~~~~~~~~~----------~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      ...  .+.|+||+|||+||.. ++         ++-. ..+..+++.+++          +..++.+++|||+++.||++
T Consensus       228 ~~~~~~~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~  307 (327)
T 3ohm_A          228 TYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRF  307 (327)
T ss_dssp             TSGGGTTCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHH
T ss_pred             hhhccCCceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHH
Confidence            542  3556679999999731 00         0000 023467777774          34567789999999999999


Q ss_pred             HHHHHHHHHhcCc
Q 041042          240 ILKFITAKLFDIP  252 (268)
Q Consensus       240 ~f~~l~~~i~~~~  252 (268)
                      +|..+.+.+++..
T Consensus       308 vF~~v~~~Il~~~  320 (327)
T 3ohm_A          308 VFAAVKDTILQLN  320 (327)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998765

>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=99.86  E-value=2.8e-21  Score=163.77  Aligned_cols=168  Identities=12%  Similarity=0.040  Sum_probs=110.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC-CCCCCCCC-cceeeEEEEEEECCeEEEEEEEeCCCccccccch--------
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE-KEQGGSPG-EGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHL--------  149 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~-~~~~~~~t-~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~--------  149 (268)
                      ....+||+|+|.+|||||||+++|++.. +...+.++ +..+.....+..++.  .+.+|||+|+..+....        
T Consensus        19 ~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~i~iiDTpG~~~~~~~~~~~~~~i~   96 (260)
T 2xtp_A           19 SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNR--EIVIIDTPDMFSWKDHCEALYKEVQ   96 (260)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETTE--EEEEEECCGGGGSSCCCHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCCC--EEEEEECcCCCCCCCCHHHHHHHHH
Confidence            3446999999999999999999999887 55455554 444444455556654  48899999987654322        


Q ss_pred             ---hhhhcCCcEEEEEEeCCChhhH-HHHHHHHHHHHHhCCCCceEEEE-eCCCCCCCCCccchhchH----HHHHHHHH
Q 041042          150 ---PVACKDSIAILFMFDLTSRCTL-KSVIRWYQQARKCNQTAIPIIIG-TKFDDFIQLPIDLQWTIA----SQARAYAK  220 (268)
Q Consensus       150 ---~~~~~~a~~vilv~D~~~~~s~-~~~~~~~~~i~~~~~~~~~ilvg-nK~Dl~~~~~~~~~~~~~----~~~~~~~~  220 (268)
                         ..+++.+|++|+|||+++.... ..+..|+..+.......++|+|. ||+|+.   .........    ++++.+++
T Consensus        97 ~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~---~~~~~~~i~~~~~~~~~~~~~  173 (260)
T 2xtp_A           97 RCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLN---GGSLMDYMHDSDNKALSKLVA  173 (260)
T ss_dssp             HHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGT---TCCHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCchhhccEEEEEEcccccC---CccHHHHHHhcchHHHHHHHH
Confidence               2367899999999999863322 22334444332222234666555 599972   111000000    44566777


Q ss_pred             HhCCeE-----EEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          221 ALNATL-----FFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       221 ~~~~~~-----~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      ..+..+     +++||++|.|++++|+.|.+.+....
T Consensus       174 ~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~~  210 (260)
T 2xtp_A          174 ACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEKN  210 (260)
T ss_dssp             HTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HhCCeEEEecCcccccccHHHHHHHHHHHHHHHHhCC
Confidence            776543     67999999999999999999887754

>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=99.86  E-value=2e-20  Score=168.55  Aligned_cols=162  Identities=16%  Similarity=0.100  Sum_probs=108.0

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcC---CCCCCCCC--CcceeeEEEEEEE-------------C--C----eEEEEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGD---EKEQGGSP--GEGLNMMDKTLLV-------------R--G----ARISYSIW  137 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~---~~~~~~~~--t~~~~~~~~~~~~-------------~--~----~~~~l~i~  137 (268)
                      ..++|+++|..++|||||+++|.+.   .+.....+  |+...+....+..             +  +    ....+.+|
T Consensus         7 ~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~ii   86 (408)
T 1s0u_A            7 AEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFV   86 (408)
T ss_dssp             CCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEEE
T ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEEE
Confidence            4699999999999999999999854   33334444  5655555444322             1  2    13789999


Q ss_pred             eCCCccccccchhhhhcCCcEEEEEEeCCC----hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHH
Q 041042          138 EVTGDAKAQDHLPVACKDSIAILFMFDLTS----RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIAS  213 (268)
Q Consensus       138 Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~----~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~  213 (268)
                      ||+|++.|.......+..+|++|+|+|+++    .++++.+..|    ... ...+.|||+||+|+.   .........+
T Consensus        87 DtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~----~~l-~~~~iivv~NK~Dl~---~~~~~~~~~~  158 (408)
T 1s0u_A           87 DSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMAL----EIL-GIDKIIIVQNKIDLV---DEKQAEENYE  158 (408)
T ss_dssp             ECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHH----HHT-TCCCEEEEEECTTSS---CTTTTTTHHH
T ss_pred             ECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHH----HHc-CCCeEEEEEEccCCC---CHHHHHHHHH
Confidence            999999998777777788999999999985    4555554433    222 123457999999972   2222223456


Q ss_pred             HHHHHHHH---hCCeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          214 QARAYAKA---LNATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       214 ~~~~~~~~---~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ++.++++.   .+++++++||++|.|++++|+.|.+.+...
T Consensus       159 ~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~~~  199 (408)
T 1s0u_A          159 QIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIPTP  199 (408)
T ss_dssp             HHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSCCC
T ss_pred             HHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCCCC
Confidence            77777765   367899999999999999999999877644

>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=99.85  E-value=5.5e-21  Score=165.56  Aligned_cols=168  Identities=14%  Similarity=0.117  Sum_probs=115.8

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCC-CCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc---------ccccchhh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQ-GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA---------KAQDHLPV  151 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~---------~~~~~~~~  151 (268)
                      ...+|+++|.+|||||||++++++..+.. ...+.+..+.....+..+  ...+.+|||+|++         .+......
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~--~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~   84 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEG--AYQAIYVDTPGLHMEEKRAINRLMNKAASS   84 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEET--TEEEEEESSSSCCHHHHHHHHHHHTCCTTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEEC--CeeEEEEECcCCCccchhhHHHHHHHHHHH
Confidence            45689999999999999999999987531 222211112211223333  3568899999987         23445567


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEc
Q 041042          152 ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSS  230 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~S  230 (268)
                      +++.+|++++|+|+++   +.....|+..... ..+.|.|+|+||+|+.    . .+....+.+.++++.+++ .++++|
T Consensus        85 ~l~~~D~vl~Vvd~~~---~~~~~~~i~~~l~-~~~~P~ilvlNK~D~~----~-~~~~~~~~l~~l~~~~~~~~~i~iS  155 (301)
T 1ega_A           85 SIGDVELVIFVVEGTR---WTPDDEMVLNKLR-EGKAPVILAVNKVDNV----Q-EKADLLPHLQFLASQMNFLDIVPIS  155 (301)
T ss_dssp             CCCCEEEEEEEEETTC---CCHHHHHHHHHHH-SSSSCEEEEEESTTTC----C-CHHHHHHHHHHHHTTSCCSEEEECC
T ss_pred             HHhcCCEEEEEEeCCC---CCHHHHHHHHHHH-hcCCCEEEEEECcccC----c-cHHHHHHHHHHHHHhcCcCceEEEE
Confidence            7899999999999977   3333444433322 2345668999999962    1 123345667777777776 789999


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCccchhcccC
Q 041042          231 ATYNINVNKILKFITAKLFDIPWTLERNLT  260 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~~~~~~~~~~~~  260 (268)
                      |++|.|++++++.+.+.+.+.++..+.+..
T Consensus       156 A~~g~~v~~l~~~i~~~l~~~~~~~~~~~~  185 (301)
T 1ega_A          156 AETGLNVDTIAAIVRKHLPEATHHFPEDYI  185 (301)
T ss_dssp             TTTTTTHHHHHHHHHTTCCBCCCSSCTTCC
T ss_pred             CCCCCCHHHHHHHHHHhCCcCCCCCCcccc
Confidence            999999999999999988776655544333

>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=99.85  E-value=3e-21  Score=168.69  Aligned_cols=121  Identities=16%  Similarity=0.215  Sum_probs=93.3

Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCC----------ChhhHHHHHHHHHHHHHhC--CCCceEEEEeCC
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLT----------SRCTLKSVIRWYQQARKCN--QTAIPIIIGTKF  197 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~----------~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~  197 (268)
                      ..+.+++|||+||++++.+|..||++++++|+|||++          +..+|.+...|+..+....  .+.|+||+|||+
T Consensus       159 ~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~  238 (340)
T 4fid_A          159 KDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKM  238 (340)
T ss_dssp             SSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECH
T ss_pred             eeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECc
Confidence            4578999999999999999999999999999999999          7889999999988887642  355567999999


Q ss_pred             CCCCC----------CCccchhchHHHHHHHHHH-h--------------------------CCeEEEEcCCCCcCHHHH
Q 041042          198 DDFIQ----------LPIDLQWTIASQARAYAKA-L--------------------------NATLFFSSATYNINVNKI  240 (268)
Q Consensus       198 Dl~~~----------~~~~~~~~~~~~~~~~~~~-~--------------------------~~~~~~~Sa~~~~~i~~~  240 (268)
                      ||...          .++-......+++.+++.. +                          ++.+++|||+++.||+.+
T Consensus       239 DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~v  318 (340)
T 4fid_A          239 DLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRV  318 (340)
T ss_dssp             HHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHHHH
T ss_pred             hhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHHHH
Confidence            97310          0000011124455444432 2                          366788999999999999


Q ss_pred             HHHHHHHHhc
Q 041042          241 LKFITAKLFD  250 (268)
Q Consensus       241 f~~l~~~i~~  250 (268)
                      |..+.+.|++
T Consensus       319 F~~v~~~Il~  328 (340)
T 4fid_A          319 FMLAVDVIMK  328 (340)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999987

>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=99.85  E-value=1.9e-20  Score=156.68  Aligned_cols=165  Identities=12%  Similarity=0.100  Sum_probs=109.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCC--CcceeeEEEEEEECCeEEEEEEEeCCCc-----------cccc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSP--GEGLNMMDKTLLVRGARISYSIWEVTGD-----------AKAQ  146 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~--t~~~~~~~~~~~~~~~~~~l~i~Dt~G~-----------~~~~  146 (268)
                      ....+||+|+|.+|||||||+++|++..+.....+  +++.+.....+.+++.  .+.+|||||.           +.+.
T Consensus        26 ~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~i~liDTpG~~~~~~~~~~~~~~~~  103 (239)
T 3lxx_A           26 RNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKET--ELVVVDTPGIFDTEVPNAETSKEII  103 (239)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETTE--EEEEEECCSCC-----CHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCCc--eEEEEECCCccCCCCCHHHHHHHHH
Confidence            44579999999999999999999999887655555  3444555556666665  4789999993           3344


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHh---CCCCceEEEEeCCCCCCCCCccchh-ch---HHHHHHHH
Q 041042          147 DHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKC---NQTAIPIIIGTKFDDFIQLPIDLQW-TI---ASQARAYA  219 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~---~~~~~~ilvgnK~Dl~~~~~~~~~~-~~---~~~~~~~~  219 (268)
                      .....+++++|++|+|+|+++....  ...|+..+...   ....|.+||+||+|+.   ...... ..   .+.++.++
T Consensus       104 ~~~~~~~~~~~~~l~v~d~~~~~~~--~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~---~~~~~~~~i~~~~~~l~~l~  178 (239)
T 3lxx_A          104 RCILLTSPGPHALLLVVPLGRYTEE--EHKATEKILKMFGERARSFMILIFTRKDDL---GDTNLHDYLREAPEDIQDLM  178 (239)
T ss_dssp             HHHHHTTTCCSEEEEEEETTCCSSH--HHHHHHHHHHHHHHHHGGGEEEEEECGGGC---------------CHHHHHHH
T ss_pred             HHHHhcCCCCcEEEEEeeCCCCCHH--HHHHHHHHHHHhhhhccceEEEEEeCCccC---CcccHHHHHHhchHHHHHHH
Confidence            4555667889999999998764441  12333333221   1233668999999973   221111 11   24688889


Q ss_pred             HHhCCeEEEEcCCCC-----cCHHHHHHHHHHHHhcC
Q 041042          220 KALNATLFFSSATYN-----INVNKILKFITAKLFDI  251 (268)
Q Consensus       220 ~~~~~~~~~~Sa~~~-----~~i~~~f~~l~~~i~~~  251 (268)
                      +..+..|+.+++..+     .++.++|..+.+.+.+.
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~~  215 (239)
T 3lxx_A          179 DIFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVREN  215 (239)
T ss_dssp             HHHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHHc
Confidence            999999988877754     68999999988877654

>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=99.85  E-value=1.7e-21  Score=177.57  Aligned_cols=155  Identities=16%  Similarity=0.246  Sum_probs=105.8

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccch--------hhh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHL--------PVA  152 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~--------~~~  152 (268)
                      ..+||+++|.+|||||||+|+|.+..+. ....++++.++....+.+++..  +.+|||+|...+....        ..+
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~~--v~liDT~G~~~~~~~ve~~gi~~~~~~  300 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGGIP--VQVLDTAGIRETSDQVEKIGVERSRQA  300 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETTEE--EEECC--------------------CC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECCEE--EEEEECCccccchhHHHHHHHHHHhhh
Confidence            3589999999999999999999987542 3344555666666677778755  6899999986654332        346


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCC
Q 041042          153 CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      ++.+|++++|||+++..++.. ..|++.+.    ..|.|+|+||+|+.   ... . ..  ...++.  .+.+++++||+
T Consensus       301 ~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~----~~piivV~NK~Dl~---~~~-~-~~--~~~~~~--~~~~~i~iSAk  366 (462)
T 3geh_A          301 ANTADLVLLTIDAATGWTTGD-QEIYEQVK----HRPLILVMNKIDLV---EKQ-L-IT--SLEYPE--NITQIVHTAAA  366 (462)
T ss_dssp             CCSCSEEEEEEETTTCSCHHH-HHHHHHHT----TSCEEEEEECTTSS---CGG-G-ST--TCCCCT--TCCCEEEEBTT
T ss_pred             hhcCCEEEEEeccCCCCCHHH-HHHHHhcc----CCcEEEEEECCCCC---cch-h-hH--HHHHhc--cCCcEEEEECC
Confidence            789999999999998877655 45665553    24668999999973   211 1 10  111111  45789999999


Q ss_pred             CCcCHHHHHHHHHHHHhcCc
Q 041042          233 YNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +|.|++++|+.|.+.+....
T Consensus       367 tg~Gi~eL~~~i~~~~~~~~  386 (462)
T 3geh_A          367 QKQGIDSLETAILEIVQTGK  386 (462)
T ss_dssp             TTBSHHHHHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHHHHHhccC
Confidence            99999999999999887654

>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=99.85  E-value=1e-20  Score=172.00  Aligned_cols=160  Identities=14%  Similarity=0.239  Sum_probs=106.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccch-----------
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHL-----------  149 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-----------  149 (268)
                      ..+||+++|.+|||||||+|++.+..+. ....++++.+.....+.++|..  +.+|||+|+.++....           
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~~--~~l~Dt~G~~~~~~~~~~~~e~~~~~~  256 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRK--YVFVDTAGLRRKSRVEPRTVEKYSNYR  256 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTEE--EEESSCSCC-----------CCSCCHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCEE--EEEEECCCCccccccchhhHHHHHHHH
Confidence            3589999999999999999999988642 2334444455556677888875  6799999985433221           


Q ss_pred             -hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHH-----HHHHHHHhC
Q 041042          150 -PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQ-----ARAYAKALN  223 (268)
Q Consensus       150 -~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~  223 (268)
                       ..+++.+|++++|+|+++..++++. .+...+..  .+.+.|+|+||+|+.   ..  .....++     .+.++...+
T Consensus       257 ~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~--~~~~~ilv~NK~Dl~---~~--~~~~~~~~~~~~~~~~~~~~~  328 (439)
T 1mky_A          257 VVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMER--RGRASVVVFNKWDLV---VH--REKRYDEFTKLFREKLYFIDY  328 (439)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH--TTCEEEEEEECGGGS---TT--GGGCHHHHHHHHHHHCGGGTT
T ss_pred             HHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH--cCCCEEEEEECccCC---Cc--hhhHHHHHHHHHHHHhccCCC
Confidence             2467889999999999987776653 23333332  245567999999972   21  1111221     223333346


Q ss_pred             CeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          224 ATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       224 ~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ++++++||++|.|++++|+.+.+.+.+.
T Consensus       329 ~~~~~~SA~~g~gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          329 SPLIFTSADKGWNIDRMIDAMNLAYASY  356 (439)
T ss_dssp             SCEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            8999999999999999999998876543

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.85  E-value=1.6e-21  Score=166.81  Aligned_cols=161  Identities=12%  Similarity=0.113  Sum_probs=98.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCC-CCCCC-------CCCcceeeEEEEEEECCeEEEEEEEeCCCccc-------cc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDE-KEQGG-------SPGEGLNMMDKTLLVRGARISYSIWEVTGDAK-------AQ  146 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~-~~~~~-------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-------~~  146 (268)
                      ..++|+|+|.+|+|||||+|++.+.. +...+       .+|++.++....+..++..+.+.+|||+|...       +.
T Consensus         7 ~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~   86 (274)
T 3t5d_A            7 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQ   86 (274)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTH
T ss_pred             cEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHH
Confidence            36999999999999999999977654 44444       67778777766666677778999999999732       22


Q ss_pred             cch-------hhhhc-------------CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCcc
Q 041042          147 DHL-------PVACK-------------DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPID  206 (268)
Q Consensus       147 ~~~-------~~~~~-------------~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~  206 (268)
                      .+.       ..|+.             .+|+++++++.++..-...-..+++.+..   ..|.|+|+||+|+   +...
T Consensus        87 ~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~---~~pvi~V~nK~D~---~~~~  160 (274)
T 3t5d_A           87 PVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE---KVNIIPLIAKADT---LTPE  160 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT---TSCEEEEESSGGG---SCHH
T ss_pred             HHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc---cCCEEEEEeccCC---CCHH
Confidence            332       33333             37899999987653222222344454433   5566899999997   3333


Q ss_pred             chhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          207 LQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      ......+.+.+.....+++++++||++++|+++++++|.+.+
T Consensus       161 e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          161 ECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCC
Confidence            333335566777778899999999999999999999998754

>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=99.84  E-value=3.2e-20  Score=164.52  Aligned_cols=163  Identities=15%  Similarity=0.113  Sum_probs=112.6

Q ss_pred             EE-EEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc---------ccccchhhhh
Q 041042           84 LK-ISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA---------KAQDHLPVAC  153 (268)
Q Consensus        84 ~k-i~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~---------~~~~~~~~~~  153 (268)
                      ++ |+++|.+|||||||+|++.+..+.....+....+.....+.+++.  .+.+|||+|.-         .|..... .+
T Consensus       179 ~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g~--~v~l~DT~G~i~~lp~~lve~f~~tl~-~~  255 (364)
T 2qtf_A          179 IPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINNR--KIMLVDTVGFIRGIPPQIVDAFFVTLS-EA  255 (364)
T ss_dssp             CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETTE--EEEEEECCCBCSSCCGGGHHHHHHHHH-GG
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECCE--EEEEEeCCCchhcCCHHHHHHHHHHHH-HH
Confidence            55 999999999999999999998764333333344556677888884  47899999962         2333332 47


Q ss_pred             cCCcEEEEEEeCCChh--hHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh---CCeEE
Q 041042          154 KDSIAILFMFDLTSRC--TLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL---NATLF  227 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~--s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~---~~~~~  227 (268)
                      ..+|++++|+|+++..  +++.+..|.+.+..... +.|.|+|+||+|+   ++.. .....+.+..+++..   +.+++
T Consensus       256 ~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl---~~~~-~~~~~~~~~~l~~~l~~~~~~~~  331 (364)
T 2qtf_A          256 KYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDK---INGD-LYKKLDLVEKLSKELYSPIFDVI  331 (364)
T ss_dssp             GGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGG---CCSC-HHHHHHHHHHHHHHHCSCEEEEE
T ss_pred             HhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCC---CCch-HHHHHHHHHHHHHHhcCCCCcEE
Confidence            8999999999999887  67777777777766543 4455799999997   3221 111233444555665   34688


Q ss_pred             EEcCCCCcCHHHHHHHHHHHHhcCcc
Q 041042          228 FSSATYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       228 ~~Sa~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      ++||++|.|++++++.|.+.+....+
T Consensus       332 ~~SA~~g~gi~~L~~~I~~~l~~~~~  357 (364)
T 2qtf_A          332 PISALKRTNLELLRDKIYQLATQLSL  357 (364)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHHHHHC-
T ss_pred             EEECCCCcCHHHHHHHHHHHhcccCC
Confidence            99999999999999999988766553

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.84  E-value=3.2e-21  Score=155.57  Aligned_cols=110  Identities=18%  Similarity=0.164  Sum_probs=85.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCC---CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcC--
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQ---GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKD--  155 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~--  155 (268)
                      ...+||+++|.+|||||||+++|.+..+..   .+.++++.++         ..+.+.+|||+|++.+...+..+++.  
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~~~  116 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKTRA  116 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------CC---------CCTTCSEEEETTCCBSSCCHHHHHHHHG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeeee---------cCCeEEEEECCCCchHHHHHHHHHHhhc
Confidence            345899999999999999999999987644   2333333222         34568899999999998888888876  


Q ss_pred             --CcEEEEEEeCC-ChhhHHHHHHHHHHHHHhC-----CCCceEEEEeCCCC
Q 041042          156 --SIAILFMFDLT-SRCTLKSVIRWYQQARKCN-----QTAIPIIIGTKFDD  199 (268)
Q Consensus       156 --a~~vilv~D~~-~~~s~~~~~~~~~~i~~~~-----~~~~~ilvgnK~Dl  199 (268)
                        +|++|+|||++ +.++|..+..|+..+....     .+.|.+||+||+|+
T Consensus       117 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  168 (193)
T 2ged_A          117 KFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL  168 (193)
T ss_dssp             GGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTS
T ss_pred             ccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHh
Confidence              89999999999 9999999999988876542     34555799999997

>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=99.84  E-value=8.6e-22  Score=174.68  Aligned_cols=163  Identities=10%  Similarity=0.119  Sum_probs=96.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCC-CCCCCC--------CCcceeeEEEEEEECCeEEEEEEEeCCCc-------ccc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDE-KEQGGS--------PGEGLNMMDKTLLVRGARISYSIWEVTGD-------AKA  145 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~-~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~-------~~~  145 (268)
                      ..++|+|+|.+|+|||||++++.+.. +...+.        +|++.++....+..++..+.+++|||+|+       +.+
T Consensus        36 ~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~  115 (361)
T 2qag_A           36 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCF  115 (361)
T ss_dssp             CEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHH
Confidence            46899999999999999999976643 433332        46666555555556677889999999998       777


Q ss_pred             ccchh-------hhhcCCcEE-----------EEEEeCCC-hhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCCc
Q 041042          146 QDHLP-------VACKDSIAI-----------LFMFDLTS-RCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLPI  205 (268)
Q Consensus       146 ~~~~~-------~~~~~a~~v-----------ilv~D~~~-~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~  205 (268)
                      ..+..       .|++.++++           ++||++++ ..++..+. .|+..+   ....++|+|+||+|+   ...
T Consensus       116 ~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l---~~~~piIlV~NK~Dl---~~~  189 (361)
T 2qag_A          116 KTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI---HNKVNIVPVIAKADT---LTL  189 (361)
T ss_dssp             CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT---CS-SCEEEEEECCSS---SCH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh---ccCCCEEEEEECCCC---CCH
Confidence            77776       677655443           47777765 55666665 454443   345566899999997   222


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          206 DLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      .......+++.++++.++++++++||++|.| ++.|.++.+.+.+.
T Consensus       190 ~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~  234 (361)
T 2qag_A          190 KERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKAS  234 (361)
T ss_dssp             HHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhc
Confidence            1111113678888888999999999999999 88888888877654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.84  E-value=1.2e-21  Score=177.98  Aligned_cols=154  Identities=12%  Similarity=0.166  Sum_probs=99.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc--------ccccchhhhhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA--------KAQDHLPVACKD  155 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~--------~~~~~~~~~~~~  155 (268)
                      .||+++|.+|||||||+|+|++..+. ...++.|.+.......+......+++|||+|++        .+...+..++++
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~-~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~   82 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDE   82 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHh
Confidence            69999999999999999999987753 233344554433333333333468999999986        566677888999


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEcCCCC
Q 041042          156 SIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSSATYN  234 (268)
Q Consensus       156 a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~  234 (268)
                      ||++|+|+|+++..++.+  .|+..+.+ ..+.|.+||+||+|+...   .      .++.++. ..++ +++++||++|
T Consensus        83 ad~il~vvD~~~~~~~~d--~~~~~~l~-~~~~pvilv~NK~D~~~~---~------~~~~~~~-~lg~~~~~~iSA~~g  149 (436)
T 2hjg_A           83 ADVIIFMVNGREGVTAAD--EEVAKILY-RTKKPVVLAVNKLDNTEM---R------ANIYDFY-SLGFGEPYPISGTHG  149 (436)
T ss_dssp             CSEEEEEEETTTCSCHHH--HHHHHHHT-TCCSCEEEEEECCCC--------------CCCSSG-GGSSCCCEECBTTTT
T ss_pred             CCEEEEEEeCCCCCCHHH--HHHHHHHH-HcCCCEEEEEECccCccc---h------hhHHHHH-HcCCCCeEEEeCcCC
Confidence            999999999998777654  33333322 235566899999997311   0      1111222 3455 7899999999


Q ss_pred             cCHHHHHHHHHHHHhcC
Q 041042          235 INVNKILKFITAKLFDI  251 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~~  251 (268)
                      .|++++|+++.+.+.+.
T Consensus       150 ~gv~~L~~~i~~~l~~~  166 (436)
T 2hjg_A          150 LGLGDLLDAVAEHFKNI  166 (436)
T ss_dssp             BTHHHHHHHHHHTGGGC
T ss_pred             CChHHHHHHHHHhcCcc
Confidence            99999999999888653

>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=99.83  E-value=8.1e-20  Score=164.76  Aligned_cols=164  Identities=13%  Similarity=0.110  Sum_probs=115.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC---CCCCCCC--CcceeeEEEEEEE-------------C--C----eEEEEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE---KEQGGSP--GEGLNMMDKTLLV-------------R--G----ARISYS  135 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~---~~~~~~~--t~~~~~~~~~~~~-------------~--~----~~~~l~  135 (268)
                      ....++|+++|..++|||||+++|.+..   +.....+  |+...+....+..             +  +    ....+.
T Consensus         7 ~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   86 (410)
T 1kk1_A            7 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVS   86 (410)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEE
Confidence            3457999999999999999999998542   3333333  5555554433322             1  1    137899


Q ss_pred             EEeCCCccccccchhhhhcCCcEEEEEEeCCC----hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch
Q 041042          136 IWEVTGDAKAQDHLPVACKDSIAILFMFDLTS----RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI  211 (268)
Q Consensus       136 i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~----~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~  211 (268)
                      +|||+|++.|.......+..+|++|+|+|+++    .++++.+..|    .... ..+.|+|+||+|+   .........
T Consensus        87 iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~----~~~~-~~~iivviNK~Dl---~~~~~~~~~  158 (410)
T 1kk1_A           87 FIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMAL----QIIG-QKNIIIAQNKIEL---VDKEKALEN  158 (410)
T ss_dssp             EEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHH----HHHT-CCCEEEEEECGGG---SCHHHHHHH
T ss_pred             EEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHH----HHcC-CCcEEEEEECccC---CCHHHHHHH
Confidence            99999999988777777788999999999985    4455554433    2222 2344689999997   222211233


Q ss_pred             HHHHHHHHHH---hCCeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          212 ASQARAYAKA---LNATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       212 ~~~~~~~~~~---~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      .+++.++++.   .+++++++||++|.|++++++.|.+.+...
T Consensus       159 ~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~~p  201 (410)
T 1kk1_A          159 YRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIPTP  201 (410)
T ss_dssp             HHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCCCC
Confidence            5566666665   467999999999999999999999877644

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.83  E-value=8.3e-20  Score=165.94  Aligned_cols=159  Identities=9%  Similarity=0.085  Sum_probs=106.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC--C-----------------------------CCCCCCCcceeeEEEEEEEC
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE--K-----------------------------EQGGSPGEGLNMMDKTLLVR  128 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~--~-----------------------------~~~~~~t~~~~~~~~~~~~~  128 (268)
                      ....++|+++|.+++|||||+++|+...  +                             .....++++.+.....+..+
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~   93 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETE   93 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecC
Confidence            3446899999999999999999995431  1                             11112333444443444444


Q ss_pred             CeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhh---HH---HHHHHHHHHHHhCCCCc-eEEEEeCCCCCC
Q 041042          129 GARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCT---LK---SVIRWYQQARKCNQTAI-PIIIGTKFDDFI  201 (268)
Q Consensus       129 ~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s---~~---~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~  201 (268)
                        ...+.||||+|+++|......+++.+|++|+|+|+++...   |+   ...+.+..+..  .+.+ .|||+||+|+..
T Consensus        94 --~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~--~~v~~iIvviNK~Dl~~  169 (439)
T 3j2k_7           94 --KKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT--AGVKHLIVLINKMDDPT  169 (439)
T ss_pred             --CeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH--cCCCeEEEEeecCCCcc
Confidence              4578999999999999888889999999999999987532   22   11222222222  2445 469999999721


Q ss_pred             -CCCccchhchHHHHHHHHHHhCC------eEEEEcCCCCcCHHHHHH
Q 041042          202 -QLPIDLQWTIASQARAYAKALNA------TLFFSSATYNINVNKILK  242 (268)
Q Consensus       202 -~~~~~~~~~~~~~~~~~~~~~~~------~~~~~Sa~~~~~i~~~f~  242 (268)
                       ...........+++..+++..++      +++++||++|.|++++++
T Consensus       170 ~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          170 VNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             cchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence             01112233445667777777654      699999999999999765

>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=99.82  E-value=2e-20  Score=172.00  Aligned_cols=158  Identities=15%  Similarity=0.096  Sum_probs=99.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC--CCCC---------------------------CCCCcceeeEEEEEEECCeE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE--KEQG---------------------------GSPGEGLNMMDKTLLVRGAR  131 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~--~~~~---------------------------~~~t~~~~~~~~~~~~~~~~  131 (268)
                      ...+||+++|.+|+|||||+++|++..  +...                           .....|.++......++...
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~  110 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  110 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCC
Confidence            346999999999999999999997541  1100                           00011333333333444555


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHH-----HHHHHHHHHhCCCCceEEEEeCCCCCCCCCcc
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSV-----IRWYQQARKCNQTAIPIIIGTKFDDFIQLPID  206 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~-----~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~  206 (268)
                      ..+.||||+|+++|......+++.+|++|+|+|+++..++..+     ..+...+.......+.|||+||+|+... ...
T Consensus       111 ~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl~~~-~~~  189 (483)
T 3p26_A          111 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDW-SQQ  189 (483)
T ss_dssp             CEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGGGTT-CHH
T ss_pred             ceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCcccc-hHH
Confidence            6799999999999999999999999999999999987654332     1111122222222345799999997210 011


Q ss_pred             chhchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHH
Q 041042          207 LQWTIASQARAYAKALN-----ATLFFSSATYNINVNK  239 (268)
Q Consensus       207 ~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~  239 (268)
                      ......+++..+.+..+     ++++++||++|.|+++
T Consensus       190 ~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          190 RFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             HHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             HHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            11223455555655554     5789999999999975

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.82  E-value=5.3e-20  Score=172.28  Aligned_cols=160  Identities=10%  Similarity=0.106  Sum_probs=112.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCC--CC-----CCC------CCCcceeeEEEEEEE-----CCeEEEEEEEeCCCccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDE--KE-----QGG------SPGEGLNMMDKTLLV-----RGARISYSIWEVTGDAK  144 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~--~~-----~~~------~~t~~~~~~~~~~~~-----~~~~~~l~i~Dt~G~~~  144 (268)
                      ..+|+|+|..++|||||+++|+...  +.     ..+      ..+.|.++....+.+     ++..+.+++|||+|+++
T Consensus         4 irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~d   83 (599)
T 3cb4_D            4 IRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHVD   83 (599)
T ss_dssp             EEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCchH
Confidence            4799999999999999999997621  11     111      112344443333332     56678999999999999


Q ss_pred             cccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC
Q 041042          145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA  224 (268)
Q Consensus       145 ~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  224 (268)
                      |......+++.+|++|+|+|+++..+++....|......   +.|+|+|+||+|+.    ...   ..+...++.+.+++
T Consensus        84 F~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~~---~ipiIvViNKiDl~----~a~---~~~v~~ei~~~lg~  153 (599)
T 3cb4_D           84 FSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEM---DLEVVPVLNKIDLP----AAD---PERVAEEIEDIVGI  153 (599)
T ss_dssp             GHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHHT---TCEEEEEEECTTST----TCC---HHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHC---CCCEEEeeeccCcc----ccc---HHHHHHHHHHHhCC
Confidence            999999999999999999999998888888888766542   44568999999972    211   23345566666776


Q ss_pred             e---EEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          225 T---LFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       225 ~---~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      .   ++++||++|.|++++|+.+.+.+....
T Consensus       154 ~~~~vi~vSAktg~GI~~Ll~~I~~~lp~p~  184 (599)
T 3cb4_D          154 DATDAVRCSAKTGVGVQDVLERLVRDIPPPE  184 (599)
T ss_dssp             CCTTCEEECTTTCTTHHHHHHHHHHHSCCCC
T ss_pred             CcceEEEeecccCCCchhHHHHHhhcCCCcc
Confidence            4   899999999999999999999886543

>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=99.82  E-value=4.8e-20  Score=150.65  Aligned_cols=160  Identities=15%  Similarity=0.165  Sum_probs=102.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc----------cccchhh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK----------AQDHLPV  151 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~----------~~~~~~~  151 (268)
                      ...+|+++|.+|||||||++++.+..+...+.++.|..+....+.+++   .+.+|||+|...          +......
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~  101 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRALGE  101 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHHHH
Confidence            358999999999999999999998876555566777665544444444   467999999742          2333334


Q ss_pred             hh---cCCcEEEEEEeCCChhhHHH--HHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC--C
Q 041042          152 AC---KDSIAILFMFDLTSRCTLKS--VIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN--A  224 (268)
Q Consensus       152 ~~---~~a~~vilv~D~~~~~s~~~--~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--~  224 (268)
                      ++   ..++++++|+|+++..++..  +..|+..     ...+.++|+||+|+   ++...+....+.+..++.+.+  +
T Consensus       102 ~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~-----~~~~~~~v~nK~D~---~s~~~~~~~~~~~~~~~~~~~~~~  173 (210)
T 1pui_A          102 YLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVD-----SNIAVLVLLTKADK---LASGARKAQLNMVREAVLAFNGDV  173 (210)
T ss_dssp             HHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-----TTCCEEEEEECGGG---SCHHHHHHHHHHHHHHHGGGCSCE
T ss_pred             HHHhhhcccEEEEEEECCCCCchhHHHHHHHHHH-----cCCCeEEEEecccC---CCchhHHHHHHHHHHHHHhcCCCC
Confidence            44   57899999999988766542  3344432     23445688999996   333222222456666776664  5


Q ss_pred             eEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          225 TLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       225 ~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      .++++||+++.|++++++.|.+.+.+.+
T Consensus       174 ~~~~~Sal~~~~~~~l~~~l~~~~~~~~  201 (210)
T 1pui_A          174 QVETFSSLKKQGVDKLRQKLDTWFSEMQ  201 (210)
T ss_dssp             EEEECBTTTTBSHHHHHHHHHHHHC---
T ss_pred             ceEEEeecCCCCHHHHHHHHHHHHhhcc
Confidence            6788999999999999999988776543

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.82  E-value=1.4e-22  Score=187.16  Aligned_cols=161  Identities=12%  Similarity=0.084  Sum_probs=115.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ..+|+++|.+++|||||+++|.+..+.....++++.++....+..++ ...+.||||||++.|..++..+++.+|++|+|
T Consensus         4 ~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~-g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILV   82 (537)
T 3izy_P            4 SPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPS-GEKITFLDTPGHAAFSAMRARGTQVTDIVILV   82 (537)
T ss_dssp             CCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSC-SSCCBCEECSSSCCTTTSBBSSSBSBSSCEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCC-CCEEEEEECCChHHHHHHHHHHHccCCEEEEE
Confidence            46899999999999999999998876666666666555544444422 12588999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHH---HHHh--CCeEEEEcCCCCcCH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAY---AKAL--NATLFFSSATYNINV  237 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~---~~~~--~~~~~~~Sa~~~~~i  237 (268)
                      +|+++....+....| ..+..  .+.|+|||+||+|+...    ......++...+   +..+  .++++++||++|.|+
T Consensus        83 VDa~dg~~~qt~e~l-~~~~~--~~vPiIVViNKiDl~~~----~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI  155 (537)
T 3izy_P           83 VAADDGVMKQTVESI-QHAKD--AHVPIVLAINKCDKAEA----DPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENM  155 (537)
T ss_dssp             CBSSSCCCHHHHHHH-HHHHT--TTCCEEECCBSGGGTTT----SCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSS
T ss_pred             EECCCCccHHHHHHH-HHHHH--cCCcEEEEEeccccccc----chHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCc
Confidence            999986665554433 23332  24456799999997321    111112222221   2222  357899999999999


Q ss_pred             HHHHHHHHHHHhcC
Q 041042          238 NKILKFITAKLFDI  251 (268)
Q Consensus       238 ~~~f~~l~~~i~~~  251 (268)
                      +++|+.+...+...
T Consensus       156 ~eLle~I~~l~~~~  169 (537)
T 3izy_P          156 MALAEATIALAEML  169 (537)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHhhhcc
Confidence            99999999877544

>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=99.82  E-value=6.8e-21  Score=173.00  Aligned_cols=158  Identities=12%  Similarity=0.126  Sum_probs=108.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcC--CCCCCC-----------------------------CCCcceeeEEEEEEECCe
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGD--EKEQGG-----------------------------SPGEGLNMMDKTLLVRGA  130 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~--~~~~~~-----------------------------~~t~~~~~~~~~~~~~~~  130 (268)
                      ..+||+++|..++|||||+++|+..  .+....                             ...+..+..  ...++..
T Consensus         5 ~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~--~~~~~~~   82 (435)
T 1jny_A            5 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLT--FMRFETK   82 (435)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-------------CEEECS
T ss_pred             CEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEee--EEEEecC
Confidence            4689999999999999999999864  232110                             111112221  1223344


Q ss_pred             EEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhC-----CCCc-eEEEEeCCCCCCC-C
Q 041042          131 RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-----QTAI-PIIIGTKFDDFIQ-L  203 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~-----~~~~-~ilvgnK~Dl~~~-~  203 (268)
                      ...+.+|||+|+++|......+++.+|++|+|+|+++ .+|+.+..|..+.+++.     .+.+ .|||+||+|+... .
T Consensus        83 ~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~  161 (435)
T 1jny_A           83 KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPY  161 (435)
T ss_dssp             SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTT
T ss_pred             CeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCccc
Confidence            5679999999999999888889999999999999998 78887655544433321     1333 4799999997311 0


Q ss_pred             CccchhchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHHHHH
Q 041042          204 PIDLQWTIASQARAYAKALN-----ATLFFSSATYNINVNKILK  242 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~~f~  242 (268)
                      .++......++++++++..+     ++++++||++|.|+.++++
T Consensus       162 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          162 DEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            01112344678888888876     6799999999999986654

>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=99.82  E-value=2.9e-19  Score=167.07  Aligned_cols=161  Identities=12%  Similarity=0.179  Sum_probs=115.0

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcC--CCCC-----CCCC------CcceeeEEE--EEEE---CCeEEEEEEEeCCCcc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGD--EKEQ-----GGSP------GEGLNMMDK--TLLV---RGARISYSIWEVTGDA  143 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~--~~~~-----~~~~------t~~~~~~~~--~~~~---~~~~~~l~i~Dt~G~~  143 (268)
                      ...+|+++|..++|||||+++|+..  .+..     ....      +.|.++...  .+.+   ++..+.+++|||+|++
T Consensus         5 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~   84 (600)
T 2ywe_A            5 NVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHV   84 (600)
T ss_dssp             GEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcH
Confidence            4579999999999999999999752  1111     1100      112222211  2222   5667899999999999


Q ss_pred             ccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC
Q 041042          144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN  223 (268)
Q Consensus       144 ~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  223 (268)
                      +|......+++.+|++|+|+|+++..+++....|......   +.|+|+|+||+|+.    ...   ..+...++.+.++
T Consensus        85 dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~~---~ipiIvviNKiDl~----~a~---~~~v~~el~~~lg  154 (600)
T 2ywe_A           85 DFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVEQ---DLVIIPVINKIDLP----SAD---VDRVKKQIEEVLG  154 (600)
T ss_dssp             GGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHHT---TCEEEEEEECTTST----TCC---HHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHC---CCCEEEEEeccCcc----ccC---HHHHHHHHHHhhC
Confidence            9998888999999999999999999888888888765542   45567999999972    211   2334455666667


Q ss_pred             C---eEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          224 A---TLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       224 ~---~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +   +++++||++|.||+++|+++++.+....
T Consensus       155 ~~~~~vi~vSAktg~GI~~Lle~I~~~lp~p~  186 (600)
T 2ywe_A          155 LDPEEAILASAKEGIGIEEILEAIVNRIPPPK  186 (600)
T ss_dssp             CCGGGCEECBTTTTBSHHHHHHHHHHHSCCCC
T ss_pred             CCcccEEEEEeecCCCchHHHHHHHHhccccc
Confidence            6   4899999999999999999999886543

>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=99.82  E-value=1.4e-20  Score=163.04  Aligned_cols=134  Identities=10%  Similarity=0.040  Sum_probs=109.9

Q ss_pred             HHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh-hHHHHH
Q 041042           98 SFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC-TLKSVI  175 (268)
Q Consensus        98 sLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~-s~~~~~  175 (268)
                      +|+.+++.+.|. ..+.||+|..+. ..+..++   .+++||+  +++|..+++.|++++|++|+|||+++++ +|+.+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            688999999998 889999995544 3332233   6899999  9999999999999999999999999998 799999


Q ss_pred             HHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC--CeEEEEcCCCCcCHHHHHHHHHH
Q 041042          176 RWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN--ATLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       176 ~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                      .|+..+..  .+.|+|||+||+||.    +  .+.. +++.++++.++  +++++|||++|.||+++|..+..
T Consensus       106 ~~l~~~~~--~~~piilv~NK~DL~----~--~~~v-~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          106 KFLVLAEK--NELETVMVINKMDLY----D--EDDL-RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             HHHHHHHH--TTCEEEEEECCGGGC----C--HHHH-HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             HHHHHHHH--CCCCEEEEEeHHHcC----C--chhH-HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            99998865  355668999999972    1  1212 55777888887  89999999999999999987653

>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=99.81  E-value=4.3e-20  Score=167.70  Aligned_cols=156  Identities=14%  Similarity=0.086  Sum_probs=106.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCC--CCCC----------CCCCcce-------------------eeEEEEEEEC
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDE--KEQG----------GSPGEGL-------------------NMMDKTLLVR  128 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~--~~~~----------~~~t~~~-------------------~~~~~~~~~~  128 (268)
                      ....+||+++|..++|||||+++|+++.  +...          ...|++.                   +.......+.
T Consensus        21 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~  100 (434)
T 1zun_B           21 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS  100 (434)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEee
Confidence            3456999999999999999999998653  1111          1122211                   1111112233


Q ss_pred             CeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCCCCccc
Q 041042          129 GARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQLPIDL  207 (268)
Q Consensus       129 ~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~~~~~~  207 (268)
                      .....+.+|||+|+++|......++..+|++|+|+|+++.... ....|+..+...  +.+ .|+|+||+|+.   ....
T Consensus       101 ~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~-qt~~~l~~~~~~--~~~~iIvviNK~Dl~---~~~~  174 (434)
T 1zun_B          101 TAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQT-QTRRHSYIASLL--GIKHIVVAINKMDLN---GFDE  174 (434)
T ss_dssp             CSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCH-HHHHHHHHHHHT--TCCEEEEEEECTTTT---TSCH
T ss_pred             cCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHHc--CCCeEEEEEEcCcCC---cccH
Confidence            3446789999999999988888899999999999999886533 334455444443  334 47999999972   2111


Q ss_pred             h--hchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHHHH
Q 041042          208 Q--WTIASQARAYAKALN-----ATLFFSSATYNINVNKIL  241 (268)
Q Consensus       208 ~--~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~~f  241 (268)
                      .  ....+++.++++.++     ++++++||++|.|++++|
T Consensus       175 ~~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~  215 (434)
T 1zun_B          175 RVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKS  215 (434)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCC
T ss_pred             HHHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCccccc
Confidence            1  234677888888888     789999999999999853

>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=99.81  E-value=3.2e-20  Score=167.10  Aligned_cols=166  Identities=13%  Similarity=0.104  Sum_probs=116.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcC--------CCCCC--C-----CCCcceeeEEEEEEECCeEEEEEEEeCCCccc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGD--------EKEQG--G-----SPGEGLNMMDKTLLVRGARISYSIWEVTGDAK  144 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~--------~~~~~--~-----~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~  144 (268)
                      ....+||+++|.+++|||||+++|.+.        .+...  .     ..+.|.++....+.++.....+.+|||+|+++
T Consensus         8 ~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~   87 (405)
T 2c78_A            8 TKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHAD   87 (405)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGG
T ss_pred             CCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHH
Confidence            345699999999999999999999873        22110  0     00223333334445555556789999999999


Q ss_pred             cccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC
Q 041042          145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN  223 (268)
Q Consensus       145 ~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  223 (268)
                      |......+++.+|++|+|+|+++.... ...+|+..+...  +.| .|+|+||+|+..  ..+......+++.++++.++
T Consensus        88 f~~~~~~~~~~aD~~ilVvda~~g~~~-qt~~~l~~~~~~--~ip~iivviNK~Dl~~--~~~~~~~~~~~~~~~l~~~~  162 (405)
T 2c78_A           88 YIKNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQV--GVPYIVVFMNKVDMVD--DPELLDLVEMEVRDLLNQYE  162 (405)
T ss_dssp             GHHHHHHHHTTCSSEEEEEETTTCCCH-HHHHHHHHHHHT--TCCCEEEEEECGGGCC--CHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCCEEEEEEECCCCCcH-HHHHHHHHHHHc--CCCEEEEEEECccccC--cHHHHHHHHHHHHHHHHHhc
Confidence            988888899999999999999886543 345566665543  345 468999999721  11111223557778888776


Q ss_pred             -----CeEEEEcCCCCcC------------------HHHHHHHHHHHHhc
Q 041042          224 -----ATLFFSSATYNIN------------------VNKILKFITAKLFD  250 (268)
Q Consensus       224 -----~~~~~~Sa~~~~~------------------i~~~f~~l~~~i~~  250 (268)
                           ++++++||++|.|                  +.++++.|.+.+..
T Consensus       163 ~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp~  212 (405)
T 2c78_A          163 FPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIPT  212 (405)
T ss_dssp             SCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSCC
T ss_pred             ccccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhcCC
Confidence                 6899999999988                  77888887776653

>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=99.80  E-value=2e-20  Score=170.88  Aligned_cols=158  Identities=12%  Similarity=0.150  Sum_probs=102.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCC--------ccccccchhh
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG--------DAKAQDHLPV  151 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G--------~~~~~~~~~~  151 (268)
                      .+...+|+|+|.+|||||||+|+|++..+. ....+.|.+.......+......+++|||+|        ++.+......
T Consensus        20 ~m~~~~V~lvG~~nvGKSTL~n~l~~~~~~-~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~   98 (456)
T 4dcu_A           20 HMGKPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEI   98 (456)
T ss_dssp             ---CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHH
T ss_pred             hcCCCEEEEECCCCCcHHHHHHHHhCCCCc-ccCCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHh
Confidence            344579999999999999999999998753 2333456665555555555556799999999        7778888889


Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC-eEEEEc
Q 041042          152 ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA-TLFFSS  230 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~S  230 (268)
                      +++++|++|+|+|..+.-+.  ...|+..+.+. .+.|+|||+||+|+.    +.     .+...++. ..+. ..+++|
T Consensus        99 ~~~~ad~il~VvD~~~~~~~--~d~~l~~~l~~-~~~pvilV~NK~D~~----~~-----~~~~~e~~-~lg~~~~~~iS  165 (456)
T 4dcu_A           99 AMDEADVIIFMVNGREGVTA--ADEEVAKILYR-TKKPVVLAVNKLDNT----EM-----RANIYDFY-SLGFGEPYPIS  165 (456)
T ss_dssp             HHHHCSEEEEEEESSSCSCH--HHHHHHHHHTT-CCSCEEEEEECC------------------CCSG-GGSSSSEEECC
T ss_pred             hHhhCCEEEEEEeCCCCCCh--HHHHHHHHHHH-cCCCEEEEEECccch----hh-----hhhHHHHH-HcCCCceEEee
Confidence            99999999999998764332  23344333332 355668999999962    10     01111121 2232 467999


Q ss_pred             CCCCcCHHHHHHHHHHHHhcC
Q 041042          231 ATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       231 a~~~~~i~~~f~~l~~~i~~~  251 (268)
                      |++|.|+.++|+.+.+.+...
T Consensus       166 A~~g~gv~~L~~~i~~~l~~~  186 (456)
T 4dcu_A          166 GTHGLGLGDLLDAVAEHFKNI  186 (456)
T ss_dssp             TTTCTTHHHHHHHHHTTGGGS
T ss_pred             cccccchHHHHHHHHhhcccc
Confidence            999999999999998876543

>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=99.80  E-value=2.7e-20  Score=161.19  Aligned_cols=165  Identities=10%  Similarity=0.093  Sum_probs=89.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcC-CCCCCC--------CCCcceeeEEEEEEECCeEEEEEEEeCCCc-------c
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGD-EKEQGG--------SPGEGLNMMDKTLLVRGARISYSIWEVTGD-------A  143 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~-~~~~~~--------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~-------~  143 (268)
                      ....++|+|+|++|||||||++++.+. .+....        .+|++.......+..++....+.+|||+|+       +
T Consensus        15 ~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e   94 (301)
T 2qnr_A           15 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRD   94 (301)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC----------
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHH
Confidence            334699999999999999999998775 443332        123332222223333556678999999998       6


Q ss_pred             ccccchh-------hhhcCC-------------cEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCC
Q 041042          144 KAQDHLP-------VACKDS-------------IAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL  203 (268)
Q Consensus       144 ~~~~~~~-------~~~~~a-------------~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~  203 (268)
                      .+..+..       .|++..             ++++++.+.+. .+|+.+.  .+.++......+.++|+||+|+   .
T Consensus        95 ~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~-~~Ld~~~--~~~l~~l~~~~~iilV~~K~Dl---~  168 (301)
T 2qnr_A           95 CFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFG-HGLKPLD--VAFMKAIHNKVNIVPVIAKADT---L  168 (301)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSS-SSCCHHH--HHHHHHHTTTSCEEEEECCGGG---S
T ss_pred             HHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcc-cCCCHHH--HHHHHHHHhcCCEEEEEEeCCC---C
Confidence            6666654       555433             33444433322 2344433  2334444444566899999997   2


Q ss_pred             CccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      .........+++.++++.+++++|++||++| |++++|..+.+.+.+.
T Consensus       169 ~~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~  215 (301)
T 2qnr_A          169 TLKERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKAS  215 (301)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcC
Confidence            2222223367889999999999999999999 9999999999988654

>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=99.80  E-value=1.7e-19  Score=161.99  Aligned_cols=162  Identities=12%  Similarity=0.104  Sum_probs=113.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCC-------CCCC-------CCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDE-------KEQG-------GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~-------~~~~-------~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      .+||+++|..++|||||+++|.+..       +...       .....|.+.....+.++.....+.+|||+|+++|...
T Consensus         3 ~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~   82 (397)
T 1d2e_A            3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKN   82 (397)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHH
T ss_pred             eEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHHH
Confidence            5899999999999999999998731       1100       0001233332233344444567889999999999888


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCCCCcc-chhchHHHHHHHHHHhC---
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQLPID-LQWTIASQARAYAKALN---  223 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~---  223 (268)
                      ...+++.+|++|+|+|+++....+....| ..+...  +.| .|+|+||+|+.   .+. ......++++++++.++   
T Consensus        83 ~~~~~~~aD~~ilVvda~~g~~~qt~e~l-~~~~~~--~vp~iivviNK~Dl~---~~~~~~~~~~~~~~~~l~~~~~~~  156 (397)
T 1d2e_A           83 MITGTAPLDGCILVVAANDGPMPQTREHL-LLARQI--GVEHVVVYVNKADAV---QDSEMVELVELEIRELLTEFGYKG  156 (397)
T ss_dssp             HHHTSSCCSEEEEEEETTTCSCHHHHHHH-HHHHHT--TCCCEEEEEECGGGC---SCHHHHHHHHHHHHHHHHHTTSCT
T ss_pred             HHhhHhhCCEEEEEEECCCCCCHHHHHHH-HHHHHc--CCCeEEEEEECcccC---CCHHHHHHHHHHHHHHHHHcCCCc
Confidence            88889999999999999986544433333 444332  445 36899999972   211 11234567788888876   


Q ss_pred             --CeEEEEcCCCCcC----------HHHHHHHHHHHHhc
Q 041042          224 --ATLFFSSATYNIN----------VNKILKFITAKLFD  250 (268)
Q Consensus       224 --~~~~~~Sa~~~~~----------i~~~f~~l~~~i~~  250 (268)
                        ++++++||++|.|          +.++|+.|.+.+..
T Consensus       157 ~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p~  195 (397)
T 1d2e_A          157 EETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIPV  195 (397)
T ss_dssp             TTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSCC
T ss_pred             ccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhCCC
Confidence              5899999999775          89999999887654

>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=99.79  E-value=7.4e-19  Score=157.91  Aligned_cols=160  Identities=13%  Similarity=0.084  Sum_probs=114.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc----cccchhhh---hcCCc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK----AQDHLPVA---CKDSI  157 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~----~~~~~~~~---~~~a~  157 (268)
                      .|+|+|.+|||||||++++.+........+..........+.+++ ...+.+||++|...    +..+...+   ++.++
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~  237 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTR  237 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHH
Confidence            578999999999999999988743211111111122223344443 24578999999743    23333333   35799


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhCC---CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC
Q 041042          158 AILFMFDLTSRCTLKSVIRWYQQARKCNQ---TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       158 ~vilv~D~~~~~s~~~~~~~~~~i~~~~~---~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      .++.|+|++ ...+.++..|.+++..+..   ..|.|||+||+|+    ..  . ...+++.+.++..+++++.+||+++
T Consensus       238 ~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl----~~--~-~~~~~l~~~l~~~g~~vi~iSA~~g  309 (416)
T 1udx_A          238 VLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDL----LE--E-EAVKALADALAREGLAVLPVSALTG  309 (416)
T ss_dssp             EEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTT----SC--H-HHHHHHHHHHHTTTSCEEECCTTTC
T ss_pred             hhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCCh----hh--H-HHHHHHHHHHHhcCCeEEEEECCCc
Confidence            999999998 6778888888888877642   4567899999996    21  2 3345566666677889999999999


Q ss_pred             cCHHHHHHHHHHHHhcCcc
Q 041042          235 INVNKILKFITAKLFDIPW  253 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~~~~  253 (268)
                      +|+++++++|.+.+.+.+.
T Consensus       310 ~gi~eL~~~i~~~l~~~~~  328 (416)
T 1udx_A          310 AGLPALKEALHALVRSTPP  328 (416)
T ss_dssp             TTHHHHHHHHHHHHHTSCC
T ss_pred             cCHHHHHHHHHHHHHhccc
Confidence            9999999999999987764

>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=99.79  E-value=5e-19  Score=165.74  Aligned_cols=162  Identities=12%  Similarity=0.098  Sum_probs=108.4

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCC----CCCCcceeeEEEEE------------EECCeEEEEEEEeCCCcccc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQG----GSPGEGLNMMDKTL------------LVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~----~~~t~~~~~~~~~~------------~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      ...+|+++|..++|||||+++|.+..+...    ..+++|..+.....            .++.....+++|||||++.|
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F   83 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAF   83 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCC
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHH
Confidence            457999999999999999999987654332    23344543321110            00011125899999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCC---hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc-----------hhch
Q 041042          146 QDHLPVACKDSIAILFMFDLTS---RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL-----------QWTI  211 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~---~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~-----------~~~~  211 (268)
                      ..++..+++.+|++|+|||+++   +++++.+..    +..  .+.|.|+|+||+|+........           ....
T Consensus        84 ~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~--~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~v  157 (594)
T 1g7s_A           84 TTLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM--YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQV  157 (594)
T ss_dssp             TTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH--TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHH
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHH----HHH--cCCeEEEEecccccccccccccCCchHHHHHHhHHHH
Confidence            9999999999999999999999   777766543    222  2456689999999743211100           0000


Q ss_pred             ----HH---HHHHHHHHhC---------------CeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          212 ----AS---QARAYAKALN---------------ATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       212 ----~~---~~~~~~~~~~---------------~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                          .+   +......+.+               ++++++||++|.|+++++++|...+.
T Consensus       158 ~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~  217 (594)
T 1g7s_A          158 QQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQ  217 (594)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcc
Confidence                11   1111122222               37899999999999999999988664

>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=99.79  E-value=7.6e-19  Score=156.77  Aligned_cols=134  Identities=13%  Similarity=0.187  Sum_probs=100.6

Q ss_pred             CcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCC----------hhhHHHHHHHHHHHHHh
Q 041042          115 GEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTS----------RCTLKSVIRWYQQARKC  184 (268)
Q Consensus       115 t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~----------~~s~~~~~~~~~~i~~~  184 (268)
                      |+|.++  +.+.+++  +.+++|||+||++|+.++..||++++++|+|||+++          ..+|+++..|++.+...
T Consensus       204 TiGi~~--~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~  279 (402)
T 1azs_C          204 TSGIFE--TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNN  279 (402)
T ss_dssp             CCSEEE--EEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTC
T ss_pred             eeeeEE--EEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhc
Confidence            455544  3455554  789999999999999999999999999999999999          89999999999998775


Q ss_pred             C--CCCceEEEEeCCCCCCC-C---C--------cc-------------chhchHHHHHHHH-----HH--------hCC
Q 041042          185 N--QTAIPIIIGTKFDDFIQ-L---P--------ID-------------LQWTIASQARAYA-----KA--------LNA  224 (268)
Q Consensus       185 ~--~~~~~ilvgnK~Dl~~~-~---~--------~~-------------~~~~~~~~~~~~~-----~~--------~~~  224 (268)
                      .  .+.|+||||||+||... +   .        +-             ......+++..|+     +.        .++
T Consensus       280 ~~~~~~piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~  359 (402)
T 1azs_C          280 RWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYC  359 (402)
T ss_dssp             TTCSSCCEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCE
T ss_pred             ccCCCCeEEEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCccc
Confidence            2  45566799999997310 0   0        00             0000135566553     22        246


Q ss_pred             eEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          225 TLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       225 ~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      .+++|||+++.||+++|..+.+.+....
T Consensus       360 ~~~~TSA~d~~nV~~vF~~v~~~I~~~~  387 (402)
T 1azs_C          360 YPHFTCAVDTENIRRVFNDCRDIIQRMH  387 (402)
T ss_dssp             EEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEeecCcCHHHHHHHHHHHHHHHH
Confidence            6789999999999999999988887554

>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=99.79  E-value=6.2e-20  Score=168.00  Aligned_cols=157  Identities=9%  Similarity=0.047  Sum_probs=93.7

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhc--CCCCC-------------------------------CCCCCcceeeEEEEEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVG--DEKEQ-------------------------------GGSPGEGLNMMDKTLLV  127 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~--~~~~~-------------------------------~~~~t~~~~~~~~~~~~  127 (268)
                      ...++|+++|..++|||||+++|+.  +.+..                               ....|++..+  ..+..
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~--~~~~~  118 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGR--AYFET  118 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------C--CEEEC
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeee--EEEec
Confidence            4568999999999999999999964  22210                               0111222221  22333


Q ss_pred             CCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCCh---hhHHHHHHHHHHHHHh-CCCCc-eEEEEeCCCCCCC
Q 041042          128 RGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSR---CTLKSVIRWYQQARKC-NQTAI-PIIIGTKFDDFIQ  202 (268)
Q Consensus       128 ~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~---~s~~~~~~~~~~i~~~-~~~~~-~ilvgnK~Dl~~~  202 (268)
                      ++  ..+.||||+|+++|......+++.+|++|+|+|+++.   .+|+....|.+.+... ..+.+ +|||+||+|+...
T Consensus       119 ~~--~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~  196 (467)
T 1r5b_A          119 EH--RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSV  196 (467)
T ss_dssp             SS--EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTC
T ss_pred             CC--eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCc
Confidence            33  5689999999999998888889999999999999986   3444333333333222 12344 4799999997311


Q ss_pred             -CCccchhchHHHHHHHHHHh-C------CeEEEEcCCCCcCHHHHH
Q 041042          203 -LPIDLQWTIASQARAYAKAL-N------ATLFFSSATYNINVNKIL  241 (268)
Q Consensus       203 -~~~~~~~~~~~~~~~~~~~~-~------~~~~~~Sa~~~~~i~~~f  241 (268)
                       ...+......+++..+++.. +      ++++++||++|.|+.++|
T Consensus       197 ~~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          197 QWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             cccHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence             01122234466778888776 4      569999999999998866

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.78  E-value=2.4e-19  Score=166.00  Aligned_cols=116  Identities=11%  Similarity=0.072  Sum_probs=81.0

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC-----------------CCCCCC---CcceeeEEEEEEECCeEEEEEEEeCCC
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK-----------------EQGGSP---GEGLNMMDKTLLVRGARISYSIWEVTG  141 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~-----------------~~~~~~---t~~~~~~~~~~~~~~~~~~l~i~Dt~G  141 (268)
                      ...+|+|+|.+|+|||||+++|+...-                 ..++.+   ..|.+.......+....+.+++|||||
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~liDTPG   91 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKDYLINLLDTPG   91 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETTEEEEEECCCC
T ss_pred             cCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCCEEEEEEECCC
Confidence            457999999999999999999962100                 000000   011222222223333346789999999


Q ss_pred             ccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       142 ~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      +++|......+++.+|++|+|+|+++..+.+....|. .+...  +.|.|+|+||+|+.
T Consensus        92 ~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~-~~~~~--~iPiivviNK~Dl~  147 (528)
T 3tr5_A           92 HADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLME-VCRLR--HTPIMTFINKMDRD  147 (528)
T ss_dssp             STTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHH-HHHTT--TCCEEEEEECTTSC
T ss_pred             chhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHHHc--CCCEEEEEeCCCCc
Confidence            9999999999999999999999999987777766654 33332  45667999999973

>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=99.78  E-value=3.5e-21  Score=176.47  Aligned_cols=156  Identities=15%  Similarity=0.192  Sum_probs=105.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ..+|+++|..++|||||+++|.+..+.....+++..+.....+..++.  .+.||||||++.|..++..++..+|++|+|
T Consensus         4 ~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~~--~i~~iDTPGhe~f~~~~~~~~~~aD~aILV   81 (501)
T 1zo1_I            4 APVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETENG--MITFLDTPGHAAFTSMRARGAQATDIVVLV   81 (501)
T ss_dssp             CCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTSS--CCCEECCCTTTCCTTSBCSSSBSCSSEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECCE--EEEEEECCCcHHHHHHHHHHHhhCCEEEEE
Confidence            478999999999999999999876654444333333332223333443  578999999999999999999999999999


Q ss_pred             EeCCC---hhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC--CeEEEEcCCCCcCH
Q 041042          163 FDLTS---RCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN--ATLFFSSATYNINV  237 (268)
Q Consensus       163 ~D~~~---~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~i  237 (268)
                      +|+++   +++++.+    ..+..  .+.|+|+++||+|+...-++.-.... .+...+++.++  ++++++||++|.|+
T Consensus        82 Vda~~g~~~qT~e~l----~~~~~--~~vPiIVviNKiDl~~~~~~~v~~~l-~~~~~~~~~~~~~~~~v~vSAktG~gI  154 (501)
T 1zo1_I           82 VAADDGVMPQTIEAI----QHAKA--AQVPVVVAVNKIDKPEADPDRVKNEL-SQYGILPEEWGGESQFVHVSAKAGTGI  154 (501)
T ss_dssp             EETTTBSCTTTHHHH----HHHHH--TTCCEEEEEECSSSSTTCCCCTTCCC-CCCCCCTTCCSSSCEEEECCTTTCTTC
T ss_pred             eecccCccHHHHHHH----HHHHh--cCceEEEEEEeccccccCHHHHHHHH-HHhhhhHHHhCCCccEEEEeeeeccCc
Confidence            99988   3444332    22222  24556899999997421111000000 00011122333  78999999999999


Q ss_pred             HHHHHHHHHH
Q 041042          238 NKILKFITAK  247 (268)
Q Consensus       238 ~~~f~~l~~~  247 (268)
                      +++|++|...
T Consensus       155 ~eLle~I~~~  164 (501)
T 1zo1_I          155 DELLDAILLQ  164 (501)
T ss_dssp             TTHHHHTTTT
T ss_pred             chhhhhhhhh
Confidence            9999998753

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.78  E-value=7.5e-19  Score=165.36  Aligned_cols=159  Identities=16%  Similarity=0.104  Sum_probs=102.1

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCC-------------------C----------CcceeeEEEEEEECCeE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGS-------------------P----------GEGLNMMDKTLLVRGAR  131 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~-------------------~----------t~~~~~~~~~~~~~~~~  131 (268)
                      ...+||+++|.+|+|||||+++|++........                   .          ..|.++......+....
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~  244 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  244 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSS
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCC
Confidence            346899999999999999999998763211110                   0          01222222222233344


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh---hHHHHHHHHHHHHHh-CCCCc-eEEEEeCCCCCCCCCcc
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC---TLKSVIRWYQQARKC-NQTAI-PIIIGTKFDDFIQLPID  206 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~---s~~~~~~~~~~i~~~-~~~~~-~ilvgnK~Dl~~~~~~~  206 (268)
                      ..+.||||+|+++|......+++.+|++|+|+|+++..   +|.....+.+.+... ....+ +|||+||+|+... ...
T Consensus       245 ~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~~-~~~  323 (611)
T 3izq_1          245 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDW-SQQ  323 (611)
T ss_dssp             CEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTTT-CHH
T ss_pred             ceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccch-hHH
Confidence            57899999999999998899999999999999998742   111111122221111 12334 4799999997310 011


Q ss_pred             chhchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHHH
Q 041042          207 LQWTIASQARAYAKALN-----ATLFFSSATYNINVNKI  240 (268)
Q Consensus       207 ~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~~  240 (268)
                      ......+++..++...+     ++++++||++|.||.++
T Consensus       324 ~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          324 RFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            12233556666666665     58999999999999876

>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=99.77  E-value=1.4e-18  Score=153.69  Aligned_cols=156  Identities=11%  Similarity=0.113  Sum_probs=107.2

Q ss_pred             CChHHHH--HHHHhcCCCCCC-------CCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           93 HIGKTSF--LEKYVGDEKEQG-------GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        93 ~vGKSsL--i~~l~~~~~~~~-------~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      .+.|--|  +.|+....+.+.       ..+|+|.+.  ..+.++  .+.+++|||+||+.++..+..||++++++|+||
T Consensus       157 ds~~yfl~~~~ri~~~~Y~PT~~Dil~~r~~T~Gi~~--~~~~~~--~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~  232 (362)
T 1zcb_A          157 ESVKYFLDNLDKLGVPDYIPSQQDILLARRPTKGIHE--YDFEIK--NVPFKMVDVGGQRSERKRWFECFDSVTSILFLV  232 (362)
T ss_dssp             TTHHHHHTTHHHHTSTTCCCCHHHHHHCCCCCSSEEE--EEEEET--TEEEEEEEECC-------CTTSCTTCCEEEEEE
T ss_pred             ccHHHHHHHHHHHhcCCCCCChhhhhhccCCccceEE--EEeeeC--CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEE
Confidence            4455544  566665555443       445677654  345555  477999999999999999999999999999999


Q ss_pred             eCCC----------hhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCC----------CCccchh-chHHHHHHHHH
Q 041042          164 DLTS----------RCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQ----------LPIDLQW-TIASQARAYAK  220 (268)
Q Consensus       164 D~~~----------~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~----------~~~~~~~-~~~~~~~~~~~  220 (268)
                      |+++          ..+|.+...|+..+...  ..+.|+||++||+||...          +++-... +..+++..++.
T Consensus       233 dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~  312 (362)
T 1zcb_A          233 SSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLV  312 (362)
T ss_dssp             ETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHH
T ss_pred             ECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHH
Confidence            9999          77999999999988764  245566799999997310          0000001 34667777662


Q ss_pred             -----------HhCCeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          221 -----------ALNATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       221 -----------~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                                 ..++.+++|||+++.||+++|+++.+.+.+..
T Consensus       313 ~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~~  355 (362)
T 1zcb_A          313 ECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHDN  355 (362)
T ss_dssp             HHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHHHH
Confidence                       34678899999999999999999999887543

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.77  E-value=1.1e-18  Score=155.06  Aligned_cols=147  Identities=10%  Similarity=-0.052  Sum_probs=107.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      +|+++|.+++|||||+++|.      ....|+...+  .  .+......+++|||||+++|.......++.+|++|+|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~------~~giTi~~~~--~--~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG------KKGTSSDITM--Y--NNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS------EEEEESSSEE--E--EECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHH------hCCEEEEeeE--E--EEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            99999999999999999997      1112222222  2  233334468999999999998777788899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhCCCCce-EEEEe-CCCCCCCCCccc-hhchHHHHHHHHHHhC---CeEEE--EcCCC---
Q 041042          165 LTSRCTLKSVIRWYQQARKCNQTAIP-IIIGT-KFDDFIQLPIDL-QWTIASQARAYAKALN---ATLFF--SSATY---  233 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgn-K~Dl~~~~~~~~-~~~~~~~~~~~~~~~~---~~~~~--~Sa~~---  233 (268)
                       + ...+....+|+..+...  +.+. |+++| |+|+     +.. .....++++++++..+   +++++  +||++   
T Consensus        93 -~-~g~~~qt~e~~~~~~~~--~i~~~ivvvNNK~Dl-----~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~  163 (370)
T 2elf_A           93 -P-QGLDAHTGECIIALDLL--GFKHGIIALTRSDST-----HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNP  163 (370)
T ss_dssp             -T-TCCCHHHHHHHHHHHHT--TCCEEEEEECCGGGS-----CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSST
T ss_pred             -C-CCCcHHHHHHHHHHHHc--CCCeEEEEEEeccCC-----CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcC
Confidence             4 45556666777666554  3455 78888 9994     211 1222466777776654   78999  99999   


Q ss_pred             CcCHHHHHHHHHHHHhc
Q 041042          234 NINVNKILKFITAKLFD  250 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~  250 (268)
                      |.|++++++.|.+.+..
T Consensus       164 g~gi~~L~~~l~~~~~~  180 (370)
T 2elf_A          164 FEGVDELKARINEVAEK  180 (370)
T ss_dssp             TTTHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHhhccc
Confidence            99999999999887654

>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=99.77  E-value=1.4e-18  Score=170.30  Aligned_cols=165  Identities=10%  Similarity=0.097  Sum_probs=114.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcC-------CCCC-------CCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGD-------EKEQ-------GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~-------~~~~-------~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      ....+||+++|..++|||||+++|.+.       .+..       ....+.|.++....+.++.....+++|||+|+++|
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF  372 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADY  372 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHH
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHH
Confidence            445799999999999999999999863       1110       11123444443333445555677899999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCCCCccc-hhchHHHHHHHHHHhC
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQLPIDL-QWTIASQARAYAKALN  223 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~  223 (268)
                      ......+++.+|++|+|+|+++....+ ..+|+..+...  +.| +|||+||+|+.   .+.. .....+++.++++..+
T Consensus       373 ~~~mi~gas~AD~aILVVDAtdGv~~Q-TrEhL~ll~~l--gIP~IIVVINKiDLv---~d~e~le~i~eEi~elLk~~G  446 (1289)
T 3avx_A          373 VKNMITGAAQMDGAILVVAATDGPMPQ-TREHILLGRQV--GVPYIIVFLNKCDMV---DDEELLELVEMEVRELLSQYD  446 (1289)
T ss_dssp             HHHHHHTSCCCSEEEEEEETTTCSCTT-HHHHHHHHHHH--TCSCEEEEEECCTTC---CCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhCCEEEEEEcCCccCcHH-HHHHHHHHHHc--CCCeEEEEEeecccc---cchhhHHHHHHHHHHHHHhcc
Confidence            888888999999999999999864333 33445555443  345 36899999972   2111 1234567888888876


Q ss_pred             -----CeEEEEcCCCC--------cCHHHHHHHHHHHHhc
Q 041042          224 -----ATLFFSSATYN--------INVNKILKFITAKLFD  250 (268)
Q Consensus       224 -----~~~~~~Sa~~~--------~~i~~~f~~l~~~i~~  250 (268)
                           ++++++||++|        .|++++|+.|.+.+..
T Consensus       447 ~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip~  486 (1289)
T 3avx_A          447 FPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIPE  486 (1289)
T ss_dssp             SCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTSCC
T ss_pred             ccccceeEEEEEeccCCCCCccccccchhhHhHHhhhcCC
Confidence                 68999999999        5799999998876653

>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=99.77  E-value=1.1e-18  Score=159.28  Aligned_cols=153  Identities=8%  Similarity=0.038  Sum_probs=104.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcC--CCCCC-------------------------------CCCCcceeeEEEEEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGD--EKEQG-------------------------------GSPGEGLNMMDKTLLV  127 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~--~~~~~-------------------------------~~~t~~~~~~~~~~~~  127 (268)
                      ...++|+++|.+++|||||+++|++.  .+...                               ...|+...+  ..  +
T Consensus         5 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~--~~--~   80 (458)
T 1f60_A            5 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIAL--WK--F   80 (458)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSC--EE--E
T ss_pred             CceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEE--EE--E
Confidence            45699999999999999999999864  22110                               112222222  22  3


Q ss_pred             CCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh---hHH---HHHHHHHHHHHhCCCCc-eEEEEeCCCCC
Q 041042          128 RGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC---TLK---SVIRWYQQARKCNQTAI-PIIIGTKFDDF  200 (268)
Q Consensus       128 ~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~---s~~---~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~  200 (268)
                      +.....+.+|||+|+++|......++..+|++|+|+|+++..   +|+   ....++..+..  .+.+ .|||+||+|+.
T Consensus        81 ~~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~--~~v~~iivviNK~Dl~  158 (458)
T 1f60_A           81 ETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT--LGVRQLIVAVNKMDSV  158 (458)
T ss_dssp             ECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH--TTCCEEEEEEECGGGG
T ss_pred             ecCCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH--cCCCeEEEEEEccccc
Confidence            334467999999999999988888999999999999998753   332   22223333332  2344 46899999972


Q ss_pred             CCCCccchhchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHHH
Q 041042          201 IQLPIDLQWTIASQARAYAKALN-----ATLFFSSATYNINVNKI  240 (268)
Q Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~~  240 (268)
                      .. ..+......+++..+++.++     ++++++||++|.|+.++
T Consensus       159 ~~-~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          159 KW-DESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             TT-CHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             cC-CHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            00 11112234667788888776     68999999999999754

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.76  E-value=1.2e-19  Score=156.53  Aligned_cols=160  Identities=16%  Similarity=0.129  Sum_probs=99.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCC------CCCCc-----------------c---eee--------------
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQG------GSPGE-----------------G---LNM--------------  120 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~------~~~t~-----------------~---~~~--------------  120 (268)
                      ....||+|+|.+|||||||+++|++..+.+.      ..|+.                 |   .++              
T Consensus        24 ~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~i  103 (299)
T 2aka_B           24 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  103 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHHh
Confidence            3457999999999999999999999887422      12220                 0   000              


Q ss_pred             ---------EEEEEEECC-eEEEEEEEeCCCcc-------------ccccchhhhhcCCcEEE-EEEeCCChhhHHHHHH
Q 041042          121 ---------MDKTLLVRG-ARISYSIWEVTGDA-------------KAQDHLPVACKDSIAIL-FMFDLTSRCTLKSVIR  176 (268)
Q Consensus       121 ---------~~~~~~~~~-~~~~l~i~Dt~G~~-------------~~~~~~~~~~~~a~~vi-lv~D~~~~~s~~~~~~  176 (268)
                               ....+.+.+ ....+.+|||||..             .+..+...|++.++++| +|+|+++..+......
T Consensus       104 ~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~  183 (299)
T 2aka_B          104 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  183 (299)
T ss_dssp             CSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHH
T ss_pred             cccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHH
Confidence                     000111110 12568999999964             34566778888988777 6999987655444444


Q ss_pred             HHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH--hC-CeEEEEcCCCCcCHHHHHHHHHHH
Q 041042          177 WYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA--LN-ATLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       177 ~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      |+..+..  .+.+.++|+||+|+.   ....  ...+.++.....  .+ .+++++||++|.|++++|+.+.+.
T Consensus       184 ~~~~~~~--~~~~~i~V~NK~Dl~---~~~~--~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~  250 (299)
T 2aka_B          184 IAKEVDP--QGQRTIGVITKLDLM---DEGT--DARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  250 (299)
T ss_dssp             HHHHHCT--TCSSEEEEEECGGGS---CTTC--CCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHH
T ss_pred             HHHHhCC--CCCeEEEEEEccccC---CCCc--hHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHH
Confidence            5554432  244557999999973   2111  112222110001  12 367889999999999999998763

>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=99.75  E-value=1e-17  Score=159.28  Aligned_cols=115  Identities=13%  Similarity=0.101  Sum_probs=82.4

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCC----------------cceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPG----------------EGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t----------------~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      ...+|+|+|..|+|||||+++|.+.........+                .+.++......+....+.+++|||+|+++|
T Consensus         8 ~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~~f   87 (665)
T 2dy1_A            8 MIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDF   87 (665)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGG
T ss_pred             CCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCccch
Confidence            3579999999999999999999853321111111                133343444444444678999999999999


Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      ......+++.+|++++|+|+++....+.. .++..+...  +.++|+|+||+|+
T Consensus        88 ~~~~~~~l~~ad~~ilVvD~~~g~~~qt~-~~~~~~~~~--~ip~ilv~NKiD~  138 (665)
T 2dy1_A           88 VGEIRGALEAADAALVAVSAEAGVQVGTE-RAWTVAERL--GLPRMVVVTKLDK  138 (665)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTCSCHHHH-HHHHHHHHT--TCCEEEEEECGGG
T ss_pred             HHHHHHHHhhcCcEEEEEcCCcccchhHH-HHHHHHHHc--cCCEEEEecCCch
Confidence            98899999999999999998876554433 444445442  4566899999997

>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=99.74  E-value=5.1e-18  Score=152.58  Aligned_cols=163  Identities=13%  Similarity=0.117  Sum_probs=87.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCC--------CCCcceeeEEEEEEECCeEEEEEEEeCCCccccc-----
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGG--------SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ-----  146 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~--------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----  146 (268)
                      ....++|+|+|++|||||||+++|++..+....        .+|++.+.....+..++....+.+||++|...+.     
T Consensus        28 ~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~  107 (418)
T 2qag_C           28 RGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNC  107 (418)
T ss_dssp             -CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------
T ss_pred             cCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhh
Confidence            334589999999999999999999987653211        2233333222222334555689999999976531     


Q ss_pred             --c------------------chhhhhcCCcEEEEEEeCCCh-hhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCCC
Q 041042          147 --D------------------HLPVACKDSIAILFMFDLTSR-CTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQLP  204 (268)
Q Consensus       147 --~------------------~~~~~~~~a~~vilv~D~~~~-~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~  204 (268)
                        .                  +...++.++++.+++|+.... .+++.+. .|+..+.   ...++|+|+||+|+   +.
T Consensus       108 ~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~---~~v~iIlVinK~Dl---l~  181 (418)
T 2qag_C          108 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH---EKVNIIPLIAKADT---LT  181 (418)
T ss_dssp             CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT---TTSEEEEEEESTTS---SC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh---ccCcEEEEEEcccC---cc
Confidence              1                  223456677776677766553 4565554 5776664   35556799999997   33


Q ss_pred             ccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          205 IDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      ........+++.+++..++++++++||+++.+++++|..+...+
T Consensus       182 ~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~i  225 (418)
T 2qag_C          182 PEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  225 (418)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCCCCCC-----------------C
T ss_pred             HHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhhC
Confidence            22111224788899999999999999999999999998887654

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.74  E-value=5.5e-19  Score=165.81  Aligned_cols=153  Identities=13%  Similarity=0.109  Sum_probs=82.5

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC--C-----------------------------CCCCCCCcceeeEEEEEEECC
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE--K-----------------------------EQGGSPGEGLNMMDKTLLVRG  129 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~--~-----------------------------~~~~~~t~~~~~~~~~~~~~~  129 (268)
                      ...++|+++|.+++|||||+++|++..  +                             .....+++..+.....  +..
T Consensus       175 k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~--~~~  252 (592)
T 3mca_A          175 KPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTT--FES  252 (592)
T ss_dssp             CCEEEEEEECCSSSTHHHHHHHHHHHHHCC--------------------------------------------------
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEE--EEe
Confidence            446899999999999999999996421  0                             0011122222222222  233


Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh---hH---HHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCC
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC---TL---KSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQ  202 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~---s~---~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~  202 (268)
                      ....+.||||+|+++|......+++.+|++|+|+|+++..   .+   ......+..+...  +.+ +|||+||+|+...
T Consensus       253 ~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~l--gip~iIvviNKiDl~~~  330 (592)
T 3mca_A          253 DKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRAL--GISEIVVSVNKLDLMSW  330 (592)
T ss_dssp             ------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHS--SCCCEEEEEECGGGGTT
T ss_pred             CCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHc--CCCeEEEEEeccccccc
Confidence            3467889999999999988888999999999999998532   11   0111112222221  344 5689999997210


Q ss_pred             CCccchhchHHHHHHHH-HHhCC-----eEEEEcCCCCcCHH
Q 041042          203 LPIDLQWTIASQARAYA-KALNA-----TLFFSSATYNINVN  238 (268)
Q Consensus       203 ~~~~~~~~~~~~~~~~~-~~~~~-----~~~~~Sa~~~~~i~  238 (268)
                       ..+......+++..+. +..++     +++++||++|.||.
T Consensus       331 -~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          331 -SEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             -CHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             -cHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence             0111222345566666 55565     79999999999998

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.73  E-value=5.3e-17  Score=137.73  Aligned_cols=115  Identities=15%  Similarity=0.150  Sum_probs=82.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCC--CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhc----
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEK--EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACK----  154 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~----  154 (268)
                      ...+||+++|.+|||||||+++|++..+  ...+.+ .........+..++.  .+.+|||||++.+......+++    
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~-~t~~~~~~~~~~~~~--~l~liDTpG~~~~~~~~~~~~~~i~~  110 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQA-EGLRPVMVSRTMGGF--TINIIDTPGLVEAGYVNHQALELIKG  110 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC--CCCCEEEEEEETTE--EEEEEECCCSEETTEECHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCC-cceeeEEEEEEECCe--eEEEEECCCCCCcccchHHHHHHHHH
Confidence            3469999999999999999999999874  222222 223333344555554  6889999999988776666554    


Q ss_pred             -----CCcEEEEEEeCCChhhHHHH-HHHHHHHHHhCCC---CceEEEEeCCCC
Q 041042          155 -----DSIAILFMFDLTSRCTLKSV-IRWYQQARKCNQT---AIPIIIGTKFDD  199 (268)
Q Consensus       155 -----~a~~vilv~D~~~~~s~~~~-~~~~~~i~~~~~~---~~~ilvgnK~Dl  199 (268)
                           ++|++++|+|+++.. +... ..|++.+......   .+.++|+||+|+
T Consensus       111 ~l~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl  163 (262)
T 3def_A          111 FLVNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQF  163 (262)
T ss_dssp             HTTTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTC
T ss_pred             HHhcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCccc
Confidence                 789999999997655 4443 4677777765332   255799999997

>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=99.71  E-value=4.2e-18  Score=152.57  Aligned_cols=85  Identities=19%  Similarity=0.225  Sum_probs=48.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCC--CcceeeEEEEE-------------------EECC-eEEEEEEEeCCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSP--GEGLNMMDKTL-------------------LVRG-ARISYSIWEVTG  141 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~--t~~~~~~~~~~-------------------~~~~-~~~~l~i~Dt~G  141 (268)
                      +||+++|.+|||||||+|++++........|  |+..+.....+                   .+++ ..+.+++|||||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            5899999999999999999998863322222  22212111111                   1233 247799999999


Q ss_pred             ccc----cccchh---hhhcCCcEEEEEEeCCCh
Q 041042          142 DAK----AQDHLP---VACKDSIAILFMFDLTSR  168 (268)
Q Consensus       142 ~~~----~~~~~~---~~~~~a~~vilv~D~~~~  168 (268)
                      ...    +..+..   .+++.+|++++|+|+++.
T Consensus        81 ~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTCC
T ss_pred             cccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            854    233433   346899999999999875

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.70  E-value=3.1e-17  Score=156.69  Aligned_cols=169  Identities=15%  Similarity=0.152  Sum_probs=108.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCC-CCCCCcce--------eeE-------------------------------
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQ-GGSPGEGL--------NMM-------------------------------  121 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~t~~~--------~~~-------------------------------  121 (268)
                      ..++|+|+|.+|+|||||+|+|++..+.+ ...+++..        +..                               
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~~  147 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEAK  147 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHHH
Confidence            35899999999999999999999887533 33343310        000                               


Q ss_pred             --------------EEEEEECCeE--EEEEEEeCCCccc---cccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHH
Q 041042          122 --------------DKTLLVRGAR--ISYSIWEVTGDAK---AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR  182 (268)
Q Consensus       122 --------------~~~~~~~~~~--~~l~i~Dt~G~~~---~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~  182 (268)
                                    ...+..+...  ..+.+|||||...   .......+++.+|++|+|+|+++..+..+...|.+.+.
T Consensus       148 ~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~  227 (695)
T 2j69_A          148 KLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIK  227 (695)
T ss_dssp             HHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTT
T ss_pred             HHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHH
Confidence                          0011111100  2488999999655   34556788999999999999999888888777765553


Q ss_pred             HhCCCCceEEEEeCCCCCCC--CCccc---hhchHHHHHH-----HHHH--------hCCeEEEEcCC------------
Q 041042          183 KCNQTAIPIIIGTKFDDFIQ--LPIDL---QWTIASQARA-----YAKA--------LNATLFFSSAT------------  232 (268)
Q Consensus       183 ~~~~~~~~ilvgnK~Dl~~~--~~~~~---~~~~~~~~~~-----~~~~--------~~~~~~~~Sa~------------  232 (268)
                      ..  ..+.++|+||+|+...  ...+.   .....+.+..     +...        ...++++|||+            
T Consensus       228 ~~--~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~  305 (695)
T 2j69_A          228 GR--GLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQA  305 (695)
T ss_dssp             TS--CCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTC
T ss_pred             hh--CCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchh
Confidence            32  3455799999997211  00000   0000111211     1111        12468999999            


Q ss_pred             --CCcCHHHHHHHHHHHHhcCc
Q 041042          233 --YNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       233 --~~~~i~~~f~~l~~~i~~~~  252 (268)
                        +|.|++++++.+.+.+....
T Consensus       306 ~~~~~Gi~~L~~~L~~~l~~~~  327 (695)
T 2j69_A          306 DLDGTGFPKFMDSLNTFLTRER  327 (695)
T ss_dssp             CCTTSSHHHHHHHHHHHHHHTH
T ss_pred             hhhccCHHHHHHHHHHHHHHhH
Confidence              99999999999988776544

>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=99.68  E-value=2.3e-17  Score=146.28  Aligned_cols=155  Identities=15%  Similarity=0.121  Sum_probs=103.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCccee--------------------------------------------
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLN--------------------------------------------  119 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~--------------------------------------------  119 (268)
                      .+|+|+|++|||||||+++|++..|.+....++...                                            
T Consensus        35 p~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~~~  114 (360)
T 3t34_A           35 PAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETDRE  114 (360)
T ss_dssp             CEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHHHh
Confidence            499999999999999999999987744333222100                                            


Q ss_pred             ------e--EEEEEEEC-CeEEEEEEEeCCCcccc-------------ccchhhhhcCCcEEEEEEeCCChhhHHHHHHH
Q 041042          120 ------M--MDKTLLVR-GARISYSIWEVTGDAKA-------------QDHLPVACKDSIAILFMFDLTSRCTLKSVIRW  177 (268)
Q Consensus       120 ------~--~~~~~~~~-~~~~~l~i~Dt~G~~~~-------------~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~  177 (268)
                            +  ....+.+. .....+.+|||||...+             ..+...|++++|++|+|+|.++.+...  ..|
T Consensus       115 ~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~~~  192 (360)
T 3t34_A          115 TGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--SDA  192 (360)
T ss_dssp             SCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--CHH
T ss_pred             cCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--HHH
Confidence                  0  00011110 11235889999998876             556778999999999999986644332  345


Q ss_pred             HHHHHHhCCC-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHH
Q 041042          178 YQQARKCNQT-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFIT  245 (268)
Q Consensus       178 ~~~i~~~~~~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~  245 (268)
                      +..+....+. .+.|+|+||+|+.   ..  .....+.+..++...+.+|+++|+.++.++++.+..+.
T Consensus       193 ~~l~~~~~~~~~~~i~V~nK~Dl~---~~--~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~  256 (360)
T 3t34_A          193 IKISREVDPSGDRTFGVLTKIDLM---DK--GTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIA  256 (360)
T ss_dssp             HHHHHHSCTTCTTEEEEEECGGGC---CT--TCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHH
T ss_pred             HHHHHHhcccCCCEEEEEeCCccC---CC--cccHHHHHcCccccccCCeEEEEECChHHhccCCCHHH
Confidence            5555555544 4557999999973   22  12223444555566788999999999999987665533

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.68  E-value=2.6e-16  Score=134.02  Aligned_cols=116  Identities=15%  Similarity=0.081  Sum_probs=79.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhh-------h--
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPV-------A--  152 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~-------~--  152 (268)
                      ..+||+++|.+|+|||||+++|++..+... .++.+.++....+.++.....+.+|||+|++.+..+...       |  
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~  116 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGERVVSI-SPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLL  116 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCC-CSSSCCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccc-cCCCCcceeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHhh
Confidence            469999999999999999999998875321 112222333333333334466899999999877544332       1  


Q ss_pred             hcCCcEEEEEEeCCChhhHHHH-HHHHHHHHHhCCC---CceEEEEeCCCC
Q 041042          153 CKDSIAILFMFDLTSRCTLKSV-IRWYQQARKCNQT---AIPIIIGTKFDD  199 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~-~~~~~~i~~~~~~---~~~ilvgnK~Dl  199 (268)
                      .+.+|++|+|||++.. ++... ..|+..+......   .+.|+|+||+|+
T Consensus       117 ~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl  166 (270)
T 1h65_A          117 DKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQF  166 (270)
T ss_dssp             TCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSC
T ss_pred             cCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECccc
Confidence            3479999999998653 35433 3777777665332   356799999997

>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=99.68  E-value=3.3e-16  Score=145.05  Aligned_cols=116  Identities=10%  Similarity=0.078  Sum_probs=76.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCC--CC------C------------CCCCCcceeeEEEEEEECCeEEEEEEEeCCC
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDE--KE------Q------------GGSPGEGLNMMDKTLLVRGARISYSIWEVTG  141 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~--~~------~------------~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G  141 (268)
                      ...+|+++|.+|+|||||+++|+...  +.      .            ....+.|.++......++...+.+++|||+|
T Consensus        12 ~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTPG   91 (529)
T 2h5e_A           12 KRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTPG   91 (529)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCCC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECCC
Confidence            46899999999999999999998631  10      0            0011223332222233333446799999999


Q ss_pred             ccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       142 ~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      ++.|......+++.+|++|+|+|+++...-.. ..++..+..  .+.|.++|+||+|+.
T Consensus        92 ~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t-~~~~~~~~~--~~ipiivviNK~Dl~  147 (529)
T 2h5e_A           92 HEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT-RKLMEVTRL--RDTPILTFMNKLDRD  147 (529)
T ss_dssp             STTCCHHHHHGGGGCSEEEEEEETTTCSCHHH-HHHHHHHTT--TTCCEEEEEECTTSC
T ss_pred             ChhHHHHHHHHHHHCCEEEEEEeCCccchHHH-HHHHHHHHH--cCCCEEEEEcCcCCc
Confidence            99999888889999999999999987643222 222232222  244557999999975

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.67  E-value=2.3e-19  Score=148.46  Aligned_cols=154  Identities=15%  Similarity=0.123  Sum_probs=93.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeE------------EEEEEEC-CeEEEEEEEeCCCccccccch
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMM------------DKTLLVR-GARISYSIWEVTGDAKAQDHL  149 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~------------~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~  149 (268)
                      .+||+++|.+|||||||+++|+...+...+.++++.++.            .+.+.++ +..+.+..||+  ++.+..+.
T Consensus        38 ~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~l~  115 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLV--GHALEDLN  115 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTCEEEEEECTTCSSCCHHHH--HHHHTTSC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCCCCccHHHHHhcCCcEEEecCCceEeccHHHH--HHHHHHHh
Confidence            489999999999999999999987665555666666554            2334443 32233334444  23333222


Q ss_pred             ----hhhhc--------------CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch
Q 041042          150 ----PVACK--------------DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI  211 (268)
Q Consensus       150 ----~~~~~--------------~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~  211 (268)
                          ..++.              ..+.++.+.|..+......  .....+     ..+.+||+||+|+.    . .....
T Consensus       116 ~~~~d~~~id~~g~i~~~~s~~~~~~~~~~v~~~~~~~~~~~--~~~~~~-----~~~~iiv~NK~Dl~----~-~~~~~  183 (226)
T 2hf9_A          116 LDEIDLLFIENVGNLICPADFDLGTHKRIVVISTTEGDDTIE--KHPGIM-----KTADLIVINKIDLA----D-AVGAD  183 (226)
T ss_dssp             GGGCSEEEEECCSCSSGGGGCCCSCSEEEEEEEGGGCTTTTT--TCHHHH-----TTCSEEEEECGGGH----H-HHTCC
T ss_pred             cCCCCEEEEeCCCCccCcchhhhccCcEEEEEecCcchhhHh--hhhhHh-----hcCCEEEEeccccC----c-hhHHH
Confidence                11111              2234456666432111000  001111     23558999999961    1 11134


Q ss_pred             HHHHHHHHHHh--CCeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          212 ASQARAYAKAL--NATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       212 ~~~~~~~~~~~--~~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      .+++.++++.+  +++++++||++|.|++++|+.+.+.+..
T Consensus       184 ~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          184 IKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             HHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            56666777665  6799999999999999999999887654

>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=99.67  E-value=2.1e-16  Score=150.90  Aligned_cols=114  Identities=16%  Similarity=0.108  Sum_probs=82.2

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcC--CC------CC------------CCCCCcceeeEEEEEEECCeEEEEEEEeC
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGD--EK------EQ------------GGSPGEGLNMMDKTLLVRGARISYSIWEV  139 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~--~~------~~------------~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt  139 (268)
                      .....+|+|+|..|+|||||+++|+..  .+      ..            ....|++..  ...+..+  .+.+++|||
T Consensus         9 ~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~--~~~~~~~--~~~i~liDT   84 (691)
T 1dar_A            9 LKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAA--VTTCFWK--DHRINIIDT   84 (691)
T ss_dssp             GGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CC--EEEEEET--TEEEEEECC
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccc--eEEEEEC--CeEEEEEEC
Confidence            345689999999999999999999842  11      00            111222222  1223333  467899999


Q ss_pred             CCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       140 ~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      +|+..|......+++.+|++|+|+|+++..+++....|.. +...  +.|+++|+||+|+.
T Consensus        85 PG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~~--~~p~ivviNKiD~~  142 (691)
T 1dar_A           85 PGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEKY--KVPRIAFANKMDKT  142 (691)
T ss_dssp             CSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHHT--TCCEEEEEECTTST
T ss_pred             cCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHHc--CCCEEEEEECCCcc
Confidence            9999999999999999999999999999888887777764 3332  45668999999975

>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=99.66  E-value=1.8e-15  Score=144.59  Aligned_cols=117  Identities=15%  Similarity=0.110  Sum_probs=81.5

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcC--CCCC-----------CCCC---CcceeeEE--EEEEEC-----CeEEEEEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGD--EKEQ-----------GGSP---GEGLNMMD--KTLLVR-----GARISYSIW  137 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~--~~~~-----------~~~~---t~~~~~~~--~~~~~~-----~~~~~l~i~  137 (268)
                      ....+|+|+|..|+|||||+++|+..  .+..           ++.+   ..|.+...  ..+.++     +..+.++||
T Consensus         8 ~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~li   87 (704)
T 2rdo_7            8 ARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINII   87 (704)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEEE
Confidence            34589999999999999999999743  1111           0000   11112211  122222     344889999


Q ss_pred             eCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          138 EVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       138 Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      ||+|+.+|......+++.+|++|+|+|+++....+....|.. +..  .+.|+++|+||+|+.
T Consensus        88 DTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~~--~~ip~ilviNKiD~~  147 (704)
T 2rdo_7           88 DTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-ANK--YKVPRIAFVNKMDRM  147 (704)
T ss_pred             eCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HHH--cCCCEEEEEeCCCcc
Confidence            999999999999999999999999999998777666555543 322  245668999999974

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.64  E-value=8.3e-16  Score=146.76  Aligned_cols=113  Identities=14%  Similarity=0.100  Sum_probs=81.6

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhc--CCCCC-----------CC-------CCCcceeeEEEEEEECCeEEEEEEEeCC
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVG--DEKEQ-----------GG-------SPGEGLNMMDKTLLVRGARISYSIWEVT  140 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~--~~~~~-----------~~-------~~t~~~~~~~~~~~~~~~~~~l~i~Dt~  140 (268)
                      ....+|+|+|.+|+|||||+++|+.  +.+..           ++       ..|+.  .....+..+  .+.+++|||+
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~--~~~~~~~~~--~~~i~liDTP   83 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITIT--SAATTAAWE--GHRVNIIDTP   83 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------C--CSEEEEEET--TEEEEEECCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEe--eeeEEEEEC--CeeEEEEECc
Confidence            3468999999999999999999984  22210           00       11111  111223334  3668999999


Q ss_pred             CccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       141 G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      |+.+|......+++.+|++|+|+|+++..+++....|.. +...  +.|+|+|+||+|+.
T Consensus        84 G~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~~--~~p~ilviNK~Dl~  140 (693)
T 2xex_A           84 GHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATTY--GVPRIVFVNKMDKL  140 (693)
T ss_dssp             CCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHHT--TCCEEEEEECTTST
T ss_pred             CCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHHc--CCCEEEEEECCCcc
Confidence            999999889999999999999999999888877766654 4332  45668999999974

>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=99.64  E-value=6e-16  Score=134.28  Aligned_cols=115  Identities=11%  Similarity=0.043  Sum_probs=69.8

Q ss_pred             EEEEEEeCCCccc-------------cccchhhhhcCCcEEEEEEeCCChhhH-HHHHHHHHHHHHhCCCCceEEEEeCC
Q 041042          132 ISYSIWEVTGDAK-------------AQDHLPVACKDSIAILFMFDLTSRCTL-KSVIRWYQQARKCNQTAIPIIIGTKF  197 (268)
Q Consensus       132 ~~l~i~Dt~G~~~-------------~~~~~~~~~~~a~~vilv~D~~~~~s~-~~~~~~~~~i~~~~~~~~~ilvgnK~  197 (268)
                      ..+.+|||+|...             +......+++.+|++++|+|.++..-. .....+...+..  .+.+.|+|+||+
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~--~~~~~i~v~NK~  208 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDP--EGKRTIGVITKL  208 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCS--SCSSEEEEEECT
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCC--CCCcEEEEEcCc
Confidence            4588999999753             445667789999999999997543211 111122222221  244557999999


Q ss_pred             CCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCC------CcCHHHHHHHHHHHHhcCcc
Q 041042          198 DDFIQLPIDLQWTIASQARAYAKALNATLFFSSATY------NINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       198 Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~------~~~i~~~f~~l~~~i~~~~~  253 (268)
                      |+.   ....  ...+.+.......+..++++|+.+      +.|+.++++.+.+.+...++
T Consensus       209 Dl~---~~~~--~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~~~~  265 (315)
T 1jwy_B          209 DLM---DKGT--DAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKNHPI  265 (315)
T ss_dssp             TSS---CSSC--CCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHTCTT
T ss_pred             ccC---Ccch--HHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhCCCc
Confidence            973   2211  112222211112235677766654      78899999999888877654

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.64  E-value=4e-16  Score=128.38  Aligned_cols=154  Identities=12%  Similarity=0.036  Sum_probs=93.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeE------------EEEEEECC------------------eEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMM------------DKTLLVRG------------------ARI  132 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~------------~~~~~~~~------------------~~~  132 (268)
                      ..+|+++|.+|||||||+++|...........++..++.            ...+.++.                  ...
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSDC  109 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTTC
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCCC
Confidence            469999999999999999999865221111111111110            01111211                  234


Q ss_pred             EEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchH
Q 041042          133 SYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIA  212 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~  212 (268)
                      .+.+|||+|+-...   ..+...++.+++|+|+++....  ...+....     ..+.++|+||+|+.    . ......
T Consensus       110 d~iiidt~G~~~~~---~~~~~~~~~~i~vvd~~~~~~~--~~~~~~~~-----~~~~iiv~NK~Dl~----~-~~~~~~  174 (221)
T 2wsm_A          110 DLLLIENVGNLICP---VDFDLGENYRVVMVSVTEGDDV--VEKHPEIF-----RVADLIVINKVALA----E-AVGADV  174 (221)
T ss_dssp             SEEEEEEEEBSSGG---GGCCCSCSEEEEEEEGGGCTTH--HHHCHHHH-----HTCSEEEEECGGGH----H-HHTCCH
T ss_pred             CEEEEeCCCCCCCC---chhccccCcEEEEEeCCCcchh--hhhhhhhh-----hcCCEEEEecccCC----c-chhhHH
Confidence            67899999951110   1122367899999998765421  11222221     34568999999961    1 111234


Q ss_pred             HHHHHHHHHh--CCeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          213 SQARAYAKAL--NATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       213 ~~~~~~~~~~--~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      +++.++++..  +++++++||++|.|++++|++|.+.+...
T Consensus       175 ~~~~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          175 EKMKADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVH  215 (221)
T ss_dssp             HHHHHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHH
Confidence            5555555554  47899999999999999999999887654

>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=99.62  E-value=3.1e-17  Score=145.05  Aligned_cols=157  Identities=17%  Similarity=0.146  Sum_probs=91.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCC------CCCc---------------------------------------
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGG------SPGE---------------------------------------  116 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~------~~t~---------------------------------------  116 (268)
                      ...+|+|+|.+|||||||+++|++..+.+..      .|+.                                       
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i~  109 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  109 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHhc
Confidence            3479999999999999999999998874322      1220                                       


Q ss_pred             ----ceeeEEEEEEECC-eEEEEEEEeCCCcc-------------ccccchhhhhcCCcEEEEEE-eCCChhhHHHHHHH
Q 041042          117 ----GLNMMDKTLLVRG-ARISYSIWEVTGDA-------------KAQDHLPVACKDSIAILFMF-DLTSRCTLKSVIRW  177 (268)
Q Consensus       117 ----~~~~~~~~~~~~~-~~~~l~i~Dt~G~~-------------~~~~~~~~~~~~a~~vilv~-D~~~~~s~~~~~~~  177 (268)
                          |.......+.+.+ ....+.+|||||..             .+..+...|++.++.+|+++ |.+....-.   .|
T Consensus       110 g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~---~~  186 (353)
T 2x2e_A          110 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANS---DA  186 (353)
T ss_dssp             TTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGC---HH
T ss_pred             ccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchh---HH
Confidence                0000001111111 12468999999953             34556777887777666554 554322211   22


Q ss_pred             HHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHH--HHHHhC-CeEEEEcCCCCcCHHHHHHHHHH
Q 041042          178 YQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARA--YAKALN-ATLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       178 ~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~-~~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                      ...++...+ +.+.|+|+||+|+.   .....  ..+..+.  +....+ .+++++||++|.|++++|+.+.+
T Consensus       187 ~~i~~~~~~~~~~~i~V~NK~Dl~---~~~~~--~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          187 LKVAKEVDPQGQRTIGVITKLDLM---DEGTD--ARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             HHHHHHHCTTCTTEEEEEECGGGS---CTTCC--CHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHhCcCCCceEEEecccccc---Ccchh--HHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            223333333 34557999999973   21110  1111110  111123 24677999999999999999876

>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=99.61  E-value=1e-14  Score=128.51  Aligned_cols=144  Identities=13%  Similarity=0.083  Sum_probs=93.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCC--CcceeeEEEEEEECCeE---------------EEEEEEeCCCcccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSP--GEGLNMMDKTLLVRGAR---------------ISYSIWEVTGDAKA  145 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~--t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~  145 (268)
                      .+||+++|.+|||||||+|++.+..+.....|  |++.+.  ..+.+++..               ..+++|||+|+.++
T Consensus         2 ~~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~--g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~   79 (363)
T 1jal_A            2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNT--GVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAG   79 (363)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCS--SEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceE--EEEecCCcccceeeeeecccceeeeEEEEEECCCCccc
Confidence            37999999999999999999998775333333  443332  234445432               57899999998875


Q ss_pred             c----cchhh---hhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHHH--------------------------
Q 041042          146 Q----DHLPV---ACKDSIAILFMFDLTSR----------CTLKSVIRWYQQAR--------------------------  182 (268)
Q Consensus       146 ~----~~~~~---~~~~a~~vilv~D~~~~----------~s~~~~~~~~~~i~--------------------------  182 (268)
                      .    .+...   +++++|++++|+|+++.          +.++++..+..++.                          
T Consensus        80 a~~~~gl~~~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~  159 (363)
T 1jal_A           80 ASKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAK  159 (363)
T ss_dssp             HHHHGGGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             ccccchHHHHHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHH
Confidence            3    34333   47999999999999862          34444433222221                          


Q ss_pred             --------------H-------------------h--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEE
Q 041042          183 --------------K-------------------C--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLF  227 (268)
Q Consensus       183 --------------~-------------------~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (268)
                                    .                   +  ....|.++|+||.|..  +   ......+.++.++...+++++
T Consensus       160 ~~~~~l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~--~---~~n~~~~~v~~~~~~~~~~~i  234 (363)
T 1jal_A          160 FELSVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDG--F---ENNPYLDRVREIAAKEGAVVV  234 (363)
T ss_dssp             HHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTC--S---SSCHHHHHHHHHHHHTTCEEE
T ss_pred             HHHHHHHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEeccccc--c---cccHHHHHHHHHHHHcCCCEE
Confidence                          0                   0  0124557999999952  1   112346778889999999999


Q ss_pred             EEcCCC
Q 041042          228 FSSATY  233 (268)
Q Consensus       228 ~~Sa~~  233 (268)
                      .+||+.
T Consensus       235 ~~sA~~  240 (363)
T 1jal_A          235 PVCAAI  240 (363)
T ss_dssp             EECHHH
T ss_pred             EechHH
Confidence            999764

>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=99.59  E-value=4.1e-15  Score=144.73  Aligned_cols=116  Identities=11%  Similarity=0.121  Sum_probs=86.0

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC------------CCC------CCCCCcceeeEEEEEE------------ECCe
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE------------KEQ------GGSPGEGLNMMDKTLL------------VRGA  130 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~------------~~~------~~~~t~~~~~~~~~~~------------~~~~  130 (268)
                      ....||+|+|..++|||||+++|+...            +..      ....|++.......+.            .++.
T Consensus        17 ~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~   96 (842)
T 1n0u_A           17 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGN   96 (842)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSS
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCC
Confidence            346899999999999999999998641            110      0111333322222222            2445


Q ss_pred             EEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          131 RISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      .+.+++|||+|+.+|...+..+++.+|++|+|||+++..+++....|.....   .+.|+|+|+||+|+
T Consensus        97 ~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~---~~~p~ilviNK~D~  162 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG---ERIKPVVVINKVDR  162 (842)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH---TTCEEEEEEECHHH
T ss_pred             CceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH---cCCCeEEEEECCCc
Confidence            7889999999999999999999999999999999999988888777765442   24566899999996

>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=99.55  E-value=8.1e-15  Score=129.60  Aligned_cols=106  Identities=9%  Similarity=0.010  Sum_probs=68.4

Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI  211 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~  211 (268)
                      +.+.||||+|...   .....+..+|++|+|+|.+..+.++.+..++       ...+.++|+||+|+   .........
T Consensus       172 ~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~~~-------~~~p~ivVlNK~Dl---~~~~~~~~~  238 (355)
T 3p32_A          172 FDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKKGV-------LELADIVVVNKADG---EHHKEARLA  238 (355)
T ss_dssp             CCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCTTS-------GGGCSEEEEECCCG---GGHHHHHHH
T ss_pred             CCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHHhH-------hhcCCEEEEECCCC---cChhHHHHH
Confidence            5688999999432   2233458999999999987765553332211       12355899999996   111011111


Q ss_pred             HHHHHHHHHHh-------CCeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          212 ASQARAYAKAL-------NATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       212 ~~~~~~~~~~~-------~~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      .++........       +.+++++||++|.|+++++++|.+.+..
T Consensus       239 ~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          239 ARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            22222222222       5789999999999999999999887754

>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=99.54  E-value=2e-14  Score=127.14  Aligned_cols=156  Identities=12%  Similarity=0.075  Sum_probs=95.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCC--CcceeeEEEEEEECC-------------------eEEEEEEEeCCCc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSP--GEGLNMMDKTLLVRG-------------------ARISYSIWEVTGD  142 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~--t~~~~~~~~~~~~~~-------------------~~~~l~i~Dt~G~  142 (268)
                      ++|+++|.+|||||||++++.+........+  |+..+..  ...+++                   ....+++|||||.
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g--~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl   79 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVG--VVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGL   79 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEE--EEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceecccee--eEecChHHHHHHHHHhcccccccccCCceEEEEECCCc
Confidence            5899999999999999999987642222211  2222221  122222                   2356899999998


Q ss_pred             cccc----cchhh---hhcCCcEEEEEEeCCCh----------hhHHHHHHHHHHH------------------------
Q 041042          143 AKAQ----DHLPV---ACKDSIAILFMFDLTSR----------CTLKSVIRWYQQA------------------------  181 (268)
Q Consensus       143 ~~~~----~~~~~---~~~~a~~vilv~D~~~~----------~s~~~~~~~~~~i------------------------  181 (268)
                      ..+.    .+...   +++.+|++++|+|+++.          +.+.++..+..++                        
T Consensus        80 ~~~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~~~~~~~v~~~~dp~~d~~~i~~EL~~~d~~~l~k~~~~~~~~~~~~~~  159 (368)
T 2dby_A           80 VKGAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGRVDPLEDAEVVETELLLADLATLERRLERLRKEARADRE  159 (368)
T ss_dssp             CCCCCSSSCTTHHHHHHHHTCSEEEEEEECCCCH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGG
T ss_pred             cccccccchHHHHHHHHHHhCCEEEEEEECCCCCceeEeecccChHHHHHHHhhHHHHccHHHHHHHHHHHHhhhccchh
Confidence            7653    23333   47899999999999862          2233222111111                        


Q ss_pred             -----------H----Hh---------------------CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCe
Q 041042          182 -----------R----KC---------------------NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNAT  225 (268)
Q Consensus       182 -----------~----~~---------------------~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (268)
                                 .    ..                     -...|.++++||.|..  +.+.......+.++.+++..+++
T Consensus       160 ~~~~~~~l~~~~~~L~~~~~~~~~~~~~~~~~~l~~~~~lt~KPvi~v~N~~e~d--~~~~~~n~~~~~v~~~a~~~g~~  237 (368)
T 2dby_A          160 RLPLLEAAEGLYVHLQEGKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEED--LPDGRGNPQVEAVRRKALEEGAE  237 (368)
T ss_dssp             GHHHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHHHSCCGGGSCEEEEEECCGGG--TTTCTTCHHHHHHHHHHHHHTCE
T ss_pred             HHHHHHHHHHHHHHHhcCCCcccCCCCHHHHHHHHHHhhhhcCCeEEeccccHHh--hcccchhhHHHHHHHHHHHcCCe
Confidence                       0    00                     0013557999999831  11111133477788899999999


Q ss_pred             EEEEcCCCCcCHHHHHHH
Q 041042          226 LFFSSATYNINVNKILKF  243 (268)
Q Consensus       226 ~~~~Sa~~~~~i~~~f~~  243 (268)
                      ++++||+++.++.++++.
T Consensus       238 vv~iSAk~E~el~eL~~~  255 (368)
T 2dby_A          238 VVVVSARLEAELAELSGE  255 (368)
T ss_dssp             EEEECHHHHHHHHTSCHH
T ss_pred             EEEeechhHHHHHHhchH
Confidence            999999987666655544

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.49  E-value=3.9e-14  Score=131.80  Aligned_cols=113  Identities=19%  Similarity=0.137  Sum_probs=79.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCC---CCCCCCcceeeEEEEEEEC-------Ce---------------------
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKE---QGGSPGEGLNMMDKTLLVR-------GA---------------------  130 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~---~~~~~t~~~~~~~~~~~~~-------~~---------------------  130 (268)
                      ...+|+|+|.+|+|||||+|+|++..+.   ....+++.. +  ..+..+       +.                     
T Consensus        64 ~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~-~--~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~  140 (550)
T 2qpt_A           64 GKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDC-F--VAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFL  140 (550)
T ss_dssp             SCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCS-E--EEEECCSSSEEECCC------------------CCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccce-E--EEEEECCcccccCCceeeecCcccHHHHhhhccccc
Confidence            3589999999999999999999998863   333333211 0  000000       00                     


Q ss_pred             ---E---------EEEEEEeCCCccc-----------cccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCC
Q 041042          131 ---R---------ISYSIWEVTGDAK-----------AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQT  187 (268)
Q Consensus       131 ---~---------~~l~i~Dt~G~~~-----------~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~  187 (268)
                         .         ..+.+|||+|...           |..+...++..+|++|+|+|+++....+....|++.+...  .
T Consensus       141 ~~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~--~  218 (550)
T 2qpt_A          141 NRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGH--E  218 (550)
T ss_dssp             TTEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTC--G
T ss_pred             ccceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhc--C
Confidence               0         2588999999865           4456677889999999999998865566666777666432  3


Q ss_pred             CceEEEEeCCCC
Q 041042          188 AIPIIIGTKFDD  199 (268)
Q Consensus       188 ~~~ilvgnK~Dl  199 (268)
                      .+.++|+||+|+
T Consensus       219 ~pvilVlNK~Dl  230 (550)
T 2qpt_A          219 DKIRVVLNKADM  230 (550)
T ss_dssp             GGEEEEEECGGG
T ss_pred             CCEEEEEECCCc
Confidence            456799999997

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.46  E-value=3.6e-14  Score=125.12  Aligned_cols=102  Identities=10%  Similarity=0.010  Sum_probs=60.2

Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI  211 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~  211 (268)
                      +.+.++||+|....   .......+|++++|+|+++....+.+..   .+    -..+.++|.||+|+   .+   ....
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i----l~~~~ivVlNK~Dl---~~---~~~~  230 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI----IEMADLVAVTKSDG---DL---IVPA  230 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC-------------------CCSCSEEEECCCSG---GG---HHHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH----HhcCCEEEEeeecC---CC---chhH
Confidence            35789999995321   2344678999999999987543332221   11    13355899999996   11   1111


Q ss_pred             HHHHHHHHH----------HhCCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          212 ASQARAYAK----------ALNATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       212 ~~~~~~~~~----------~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      ......+..          .++.+++.+||++|.|+++++++|.+.+.
T Consensus       231 ~~~~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          231 RRIQAEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQD  278 (349)
T ss_dssp             HHHHHHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHH
Confidence            112222221          12467899999999999999999987653

>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=99.45  E-value=3.9e-13  Score=116.17  Aligned_cols=97  Identities=8%  Similarity=0.015  Sum_probs=80.4

Q ss_pred             ccccccchhhhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch-HHHHHHHH
Q 041042          142 DAKAQDHLPVACKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI-ASQARAYA  219 (268)
Q Consensus       142 ~~~~~~~~~~~~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~~  219 (268)
                      ++++..+.+.+++++|++++|||++++. +++.+.+|+..+..  .+.++|||+||+||   .++  ..+. .++..+++
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~--~~~~~ilV~NK~DL---~~~--~~v~~~~~~~~~~  138 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY--FKVEPVIVFNKIDL---LNE--EEKKELERWISIY  138 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH--TTCEEEEEECCGGG---CCH--HHHHHHHHHHHHH
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh--CCCCEEEEEEcccC---CCc--cccHHHHHHHHHH
Confidence            7888899999999999999999999987 89999999987765  45677899999997   222  1112 45667777


Q ss_pred             HHhCCeEEEEcCCCCcCHHHHHHHHH
Q 041042          220 KALNATLFFSSATYNINVNKILKFIT  245 (268)
Q Consensus       220 ~~~~~~~~~~Sa~~~~~i~~~f~~l~  245 (268)
                      +..+++++++||++|.|++++|+.+.
T Consensus       139 ~~~g~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          139 RDAGYDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             HHTTCEEEECCTTTCTTHHHHHHHTT
T ss_pred             HHCCCeEEEEECCCCCCHHHHHhhcc
Confidence            88899999999999999999998764

>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=99.40  E-value=2.8e-12  Score=108.07  Aligned_cols=114  Identities=9%  Similarity=-0.028  Sum_probs=66.8

Q ss_pred             EEEEEEeCCCccccccchh------hhhcCCcEEEEEEeCCChhh---HHHHHHHHHHHHHhCCCCceEEEEeCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQDHLP------VACKDSIAILFMFDLTSRCT---LKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQ  202 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~------~~~~~a~~vilv~D~~~~~s---~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~  202 (268)
                      +.+.+|||+|+..+.....      ..+.. +++++++|.+...+   +.....+..... ...+.|.++|+||+|+.  
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~-~~~~~p~~iv~NK~D~~--  184 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLID-LRLGATTIPALNKVDLL--  184 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHH-HHHTSCEEEEECCGGGC--
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHh-cccCCCeEEEEeccccc--
Confidence            4689999999877543322      23456 88888888754333   322222111111 11244567999999962  


Q ss_pred             CCccchhchHH---HHH----H-----------------HHHHhC--CeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          203 LPIDLQWTIAS---QAR----A-----------------YAKALN--ATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       203 ~~~~~~~~~~~---~~~----~-----------------~~~~~~--~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                       .........+   +..    .                 +++.++  ++++++||++|.|+++++++|.+.+..
T Consensus       185 -~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          185 -SEEEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCT  257 (262)
T ss_dssp             -CHHHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             -ccccHHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhcc
Confidence             2111000111   101    1                 124443  489999999999999999999887643

>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=99.38  E-value=4.4e-13  Score=117.79  Aligned_cols=105  Identities=11%  Similarity=-0.011  Sum_probs=63.3

Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI  211 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~  211 (268)
                      +.+.+|||+|...+..   ...+.+|++++|+|.++.+.++.+....  .     +.+.++|+||+|+.   ........
T Consensus       149 ~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~~~--~-----~~p~ivv~NK~Dl~---~~~~~~~~  215 (341)
T 2p67_A          149 YDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKKGL--M-----EVADLIVINKDDGD---NHTNVAIA  215 (341)
T ss_dssp             CSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCHHH--H-----HHCSEEEECCCCTT---CHHHHHHH
T ss_pred             CCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHHhh--h-----cccCEEEEECCCCC---ChHHHHHH
Confidence            4688999999654332   2468999999999997654332221111  1     22458999999962   11011111


Q ss_pred             HHHHHHHHHHh-------CCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          212 ASQARAYAKAL-------NATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       212 ~~~~~~~~~~~-------~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      .++.+......       ..+++.+||++|.|++++++.|.+.+.
T Consensus       216 ~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          216 RHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            12233322222       357899999999999999999988664

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.36  E-value=5.1e-12  Score=117.47  Aligned_cols=116  Identities=9%  Similarity=0.024  Sum_probs=78.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCC-----------------CCCCCCC---CcceeeEEEEEEECCeEEEEEEEeCCC
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDE-----------------KEQGGSP---GEGLNMMDKTLLVRGARISYSIWEVTG  141 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~-----------------~~~~~~~---t~~~~~~~~~~~~~~~~~~l~i~Dt~G  141 (268)
                      +.-+|+|+|..++|||||..+++...                 -..++.+   .-|.+..+..+.+..+.++++|+||||
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPG  109 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRDRVVNLLDTPG  109 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETTEEEEEECCCC
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECCEEEEEEeCCC
Confidence            35689999999999999999985210                 0011111   112222222223333446789999999


Q ss_pred             ccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       142 ~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      +.+|.......++-+|++|+|+|+.+.-.-+....|.... ++  +.|+|++.||+|..
T Consensus       110 HvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~-~~--~lp~i~fINK~Dr~  165 (548)
T 3vqt_A          110 HQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCR-MR--ATPVMTFVNKMDRE  165 (548)
T ss_dssp             GGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHH-HT--TCCEEEEEECTTSC
T ss_pred             cHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHHH-Hh--CCceEEEEecccch
Confidence            9999999999999999999999998765555555664433 32  55678999999963

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.27  E-value=3.5e-12  Score=113.41  Aligned_cols=89  Identities=13%  Similarity=0.187  Sum_probs=52.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCe---------------EEEEEEEeCCCcccccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGA---------------RISYSIWEVTGDAKAQD  147 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~l~i~Dt~G~~~~~~  147 (268)
                      .++|+++|.+|||||||+|++.+..+.....|+.+.+.....+.+++.               ...+++|||+|...+..
T Consensus        22 ~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~as  101 (396)
T 2ohf_A           22 SLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGAH  101 (396)
T ss_dssp             CCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC------
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccccc
Confidence            479999999999999999999998765555554444444455555543               23589999999887543


Q ss_pred             -------chhhhhcCCcEEEEEEeCCChhhH
Q 041042          148 -------HLPVACKDSIAILFMFDLTSRCTL  171 (268)
Q Consensus       148 -------~~~~~~~~a~~vilv~D~~~~~s~  171 (268)
                             ....+++++|++++|+|+++.+++
T Consensus       102 ~~~glg~~~l~~ir~aD~Il~VvD~~~~~~i  132 (396)
T 2ohf_A          102 NGQGLGNAFLSHISACDGIFHLTRAFEDDDI  132 (396)
T ss_dssp             -----CCHHHHHHHTSSSEEEEEEC------
T ss_pred             hhhHHHHHHHHHHHhcCeEEEEEecCCCcch
Confidence                   345678999999999999875543

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.26  E-value=5.1e-11  Score=105.43  Aligned_cols=113  Identities=14%  Similarity=0.202  Sum_probs=77.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc----ccchhh---hhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA----QDHLPV---ACKD  155 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~----~~~~~~---~~~~  155 (268)
                      ..+|.++|.||||||||+|++++........|....+.....+.+++..  +++.||||.-..    ..+...   .++.
T Consensus        72 ~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~~~--i~l~D~pGl~~~a~~~~~~g~~~l~~i~~  149 (376)
T 4a9a_A           72 VASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKGAK--IQMLDLPGIIDGAKDGRGRGKQVIAVART  149 (376)
T ss_dssp             SEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETTEE--EEEEECGGGCCC-----CHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCCcE--EEEEeCCCccCCchhhhHHHHHHHHHHHh
Confidence            3799999999999999999999876444444434445555667777755  789999996432    112222   3578


Q ss_pred             CcEEEEEEeCCChhhHHHHHHHHHHHHHhC---CCCceEEEEeCCCC
Q 041042          156 SIAILFMFDLTSRCTLKSVIRWYQQARKCN---QTAIPIIIGTKFDD  199 (268)
Q Consensus       156 a~~vilv~D~~~~~s~~~~~~~~~~i~~~~---~~~~~ilvgnK~Dl  199 (268)
                      ||++++|+|++++..  .......++....   ...|++++.||.|.
T Consensus       150 ad~il~vvD~~~p~~--~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~  194 (376)
T 4a9a_A          150 CNLLFIILDVNKPLH--HKQIIEKELEGVGIRLNKTPPDILIKKKEK  194 (376)
T ss_dssp             CSEEEEEEETTSHHH--HHHHHHHHHHHTTEEETCCCCCEEEEECSS
T ss_pred             cCccccccccCccHH--HHHHHHHHHHHhhHhhccCChhhhhhHhhh
Confidence            999999999998643  2222333444332   35567899999995

>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=99.24  E-value=5.2e-12  Score=120.53  Aligned_cols=158  Identities=19%  Similarity=0.153  Sum_probs=92.0

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCC-CCCcc------------------------------------------
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGG-SPGEG------------------------------------------  117 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~-~~t~~------------------------------------------  117 (268)
                      ....+|+|+|.+++|||||+|++++..+.+.. ..++.                                          
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            44569999999999999999999998762211 11100                                          


Q ss_pred             ------eeeEEEEEEECC-eEEEEEEEeCCCccc-------------cccchhhhh-cCCcEEEEEEeCCChhhHHHHHH
Q 041042          118 ------LNMMDKTLLVRG-ARISYSIWEVTGDAK-------------AQDHLPVAC-KDSIAILFMFDLTSRCTLKSVIR  176 (268)
Q Consensus       118 ------~~~~~~~~~~~~-~~~~l~i~Dt~G~~~-------------~~~~~~~~~-~~a~~vilv~D~~~~~s~~~~~~  176 (268)
                            .......+.+.+ ....+.++||||-..             ...+...|+ ..+|++++|+|+++..+-.+...
T Consensus       129 ~g~~~~is~~~i~l~I~~P~~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~  208 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  208 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETTCCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHH
T ss_pred             cCCCCcccccceEEEEecCCCCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHH
Confidence                  000001111100 012377999999433             223444455 57899999999986533333223


Q ss_pred             HHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH----hC-CeEEEEcCCCCcCHHHHHHHHHHH
Q 041042          177 WYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA----LN-ATLFFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       177 ~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~----~~-~~~~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      ++..+..  .+.|.|+|.||+|+.   .....  .. .... .+.    .+ .+++.+||++|.|++++++.+.+.
T Consensus       209 ll~~L~~--~g~pvIlVlNKiDlv---~~~~~--~~-~il~-~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          209 IAKEVDP--QGQRTIGVITKLDLM---DEGTD--AR-DVLE-NKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             HHHHHCT--TCSSEEEEEECTTSS---CTTCC--SH-HHHT-TCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             HHHHHHh--cCCCEEEEEeCcccC---Ccchh--hH-HHHH-HHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            3333322  234568999999973   22211  11 1111 001    12 245669999999999999998873

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.20  E-value=6.4e-12  Score=118.96  Aligned_cols=113  Identities=12%  Similarity=0.130  Sum_probs=77.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC--CC------CC-----CCCC---CcceeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD--EK------EQ-----GGSP---GEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~--~~------~~-----~~~~---t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      +|+|+|..++|||||..+++..  .+      ..     ++.+   .-|.+..+..+.+..+...++++||||+.+|...
T Consensus         4 Ni~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~E   83 (638)
T 3j25_A            4 NIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLAE   83 (638)
T ss_dssp             CCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHHH
Confidence            6899999999999999998631  11      00     0110   0023333333333444567899999999999999


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF  200 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~  200 (268)
                      ....++-+|++|+|+|+.+.-.-+....|....+.   +.|+|++.||+|..
T Consensus        84 v~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~~~---~lp~i~~INKmDr~  132 (638)
T 3j25_A           84 VYRSLSVLDGAILLISAKDGVQAQTRILFHALRKM---GIPTIFFINKIDQN  132 (638)
T ss_dssp             HHHHHTTCSEEECCEESSCTTCSHHHHHHHHHHHH---TCSCEECCEECCSS
T ss_pred             HHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHHHc---CCCeEEEEeccccc
Confidence            99999999999999999875443443444443332   45678999999953

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=99.19  E-value=6.6e-12  Score=101.37  Aligned_cols=106  Identities=5%  Similarity=-0.044  Sum_probs=65.0

Q ss_pred             CCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHH---hC---CCCceEEEEeCC-CCCCCCCccchhch
Q 041042          139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK---CN---QTAIPIIIGTKF-DDFIQLPIDLQWTI  211 (268)
Q Consensus       139 t~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~---~~---~~~~~ilvgnK~-Dl~~~~~~~~~~~~  211 (268)
                      .+||+.++.+|+.||.++|++|+|+|.+|.+.++ .+.-+.++..   ..   .+.|.+|.+||. |+...++.      
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~Ams~------  181 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPC------  181 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCBCCH------
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCCCCH------
Confidence            4589999999999999999999999999986554 3333333322   11   234556888995 76332222      


Q ss_pred             HHHHHHHHH----HhCCeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          212 ASQARAYAK----ALNATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       212 ~~~~~~~~~----~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                       .++.+...    ...+.+..|||++|+|+.+.++||++.+..+.
T Consensus       182 -~EI~e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~k~  225 (227)
T 3l82_B          182 -FYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESKR  225 (227)
T ss_dssp             -HHHHHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTTC-
T ss_pred             -HHHHHHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHhhc
Confidence             22211111    13455777999999999999999998776553

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.18  E-value=2.6e-10  Score=99.86  Aligned_cols=103  Identities=13%  Similarity=0.061  Sum_probs=61.6

Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhch
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTI  211 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~  211 (268)
                      ..+.++||+|...-.   ......+|.+++|+|.+..+..+.+..++.+       .+.++|.||+|+   .+.  ....
T Consensus       148 ~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~~~i~~-------~~~ivvlNK~Dl---~~~--~~~s  212 (337)
T 2qm8_A          148 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKGIFE-------LADMIAVNKADD---GDG--ERRA  212 (337)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTTHHH-------HCSEEEEECCST---TCC--HHHH
T ss_pred             CCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHHHHHhc-------cccEEEEEchhc---cCc--hhHH
Confidence            458899999964321   2235789999999998654432222221111       133677799996   221  1112


Q ss_pred             HHHHHHHHHH----------hCCeEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          212 ASQARAYAKA----------LNATLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       212 ~~~~~~~~~~----------~~~~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      ....+.+...          +..+++.+||+++.|++++++.|.+...
T Consensus       213 ~~~~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          213 SAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            2223333321          1457889999999999999999987653

>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=99.16  E-value=4.2e-10  Score=100.13  Aligned_cols=85  Identities=15%  Similarity=0.244  Sum_probs=61.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeE---------------EEEEEEeCCCcccc-
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGAR---------------ISYSIWEVTGDAKA-  145 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~---------------~~l~i~Dt~G~~~~-  145 (268)
                      ..+|.++|.+|||||||+|.+++... .....|.+..+.....+.+++..               ..+.+||++|.... 
T Consensus        20 g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~~~   99 (392)
T 1ni3_A           20 NLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGA   99 (392)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccccCC
Confidence            47999999999999999999999775 55555544445555566666521               35889999995432 


Q ss_pred             ------ccchhhhhcCCcEEEEEEeCCC
Q 041042          146 ------QDHLPVACKDSIAILFMFDLTS  167 (268)
Q Consensus       146 ------~~~~~~~~~~a~~vilv~D~~~  167 (268)
                            .......++.+|+++.|+|+.+
T Consensus       100 s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A          100 STGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence                  2223345689999999999864

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.16  E-value=6.6e-10  Score=106.45  Aligned_cols=115  Identities=16%  Similarity=0.126  Sum_probs=77.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcC--------CCCC-----CCC---CCcceeeEEE--EEEEC-----CeEEEEEEEe
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGD--------EKEQ-----GGS---PGEGLNMMDK--TLLVR-----GARISYSIWE  138 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~--------~~~~-----~~~---~t~~~~~~~~--~~~~~-----~~~~~l~i~D  138 (268)
                      +.-+|+|+|...+|||||..+|+..        ....     ++.   ..-|.+..+.  .+.+.     ...+.++++|
T Consensus        12 ~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlID   91 (709)
T 4fn5_A           12 RYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVID   91 (709)
T ss_dssp             GEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEEC
T ss_pred             HCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEEe
Confidence            3457999999999999999998621        1110     000   0112222222  22232     2368899999


Q ss_pred             CCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       139 t~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      |||+-+|.......++-+|++|+|+|+...-.-+...-|.+..+.   +.|+|++.||+|.
T Consensus        92 TPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~---~lp~i~~iNKiDr  149 (709)
T 4fn5_A           92 TPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKY---GVPRIVYVNKMDR  149 (709)
T ss_dssp             CCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHH---TCCEEEEEECSSS
T ss_pred             CCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHc---CCCeEEEEccccc
Confidence            999999999999999999999999999876555554555554443   5677999999996

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.08  E-value=2.5e-10  Score=101.18  Aligned_cols=100  Identities=17%  Similarity=0.165  Sum_probs=77.4

Q ss_pred             CccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc-hhchHHHHHHHH
Q 041042          141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL-QWTIASQARAYA  219 (268)
Q Consensus       141 G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~  219 (268)
                      .+++|..+...+++.++++++|+|++|..     ..|...+.++..+.|+++|+||+||   ++... .....+.+..++
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~~~~p~ilV~NK~DL---~~~~~~~~~~~~~l~~~~  126 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFVGNNKVLLVGNKADL---IPKSVKHDKVKHWMRYSA  126 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHSSSSCEEEEEECGGG---SCTTSCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHhCCCcEEEEEEChhc---CCcccCHHHHHHHHHHHH
Confidence            46889999999999999999999999853     5677777777667777899999997   33221 112234445557


Q ss_pred             HHhCC---eEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          220 KALNA---TLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       220 ~~~~~---~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      +..|+   +++++||++|.|++++++.+.+..
T Consensus       127 ~~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          127 KQLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HHTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            77887   799999999999999999997654

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=99.06  E-value=1e-10  Score=98.86  Aligned_cols=106  Identities=5%  Similarity=-0.028  Sum_probs=69.4

Q ss_pred             CCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHH---HHH-Hh--CCCCceEEEEeC-CCCCCCCCccchhch
Q 041042          139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQ---QAR-KC--NQTAIPIIIGTK-FDDFIQLPIDLQWTI  211 (268)
Q Consensus       139 t~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~---~i~-~~--~~~~~~ilvgnK-~Dl~~~~~~~~~~~~  211 (268)
                      .+||+.++.+|+.||.++|++|+|+|.+|.+.++ ...-+.   .+. ..  ..+.|.+|.+|| .|+...++.      
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~Ams~------  266 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPC------  266 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCBCCH------
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCCCCH------
Confidence            5789999999999999999999999999988654 222222   121 11  235556688896 686333222      


Q ss_pred             HHHHHHHHH----HhCCeEEEEcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          212 ASQARAYAK----ALNATLFFSSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       212 ~~~~~~~~~----~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                       .++.+...    .....+..|||++|+|+.|.++||++.+..+.
T Consensus       267 -~EI~e~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k~  310 (312)
T 3l2o_B          267 -FYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESKR  310 (312)
T ss_dssp             -HHHHHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC--
T ss_pred             -HHHHHHcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhhc
Confidence             22211111    13455777999999999999999999886553

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.95  E-value=8.6e-10  Score=97.75  Aligned_cols=101  Identities=16%  Similarity=0.146  Sum_probs=76.1

Q ss_pred             CccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc-hhchHHHHHHHH
Q 041042          141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL-QWTIASQARAYA  219 (268)
Q Consensus       141 G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~  219 (268)
                      .++.|..+...+++.++++++|+|+++..+     .|...+.+...+.+.++|+||+||   ++.+. .....+....++
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l~~~piilV~NK~DL---l~~~~~~~~~~~~l~~~~  128 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFAADNPILLVGNKADL---LPRSVKYPKLLRWMRRMA  128 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHCTTSCEEEEEECGGG---SCTTCCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHhCCCCEEEEEEChhc---CCCccCHHHHHHHHHHHH
Confidence            578999999999999999999999999774     455566666556677899999998   33321 122234445556


Q ss_pred             HHhCC---eEEEEcCCCCcCHHHHHHHHHHHHh
Q 041042          220 KALNA---TLFFSSATYNINVNKILKFITAKLF  249 (268)
Q Consensus       220 ~~~~~---~~~~~Sa~~~~~i~~~f~~l~~~i~  249 (268)
                      +..|.   .++.+||++|.|++++++.+.+...
T Consensus       129 ~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~~  161 (369)
T 3ec1_A          129 EELGLCPVDVCLVSAAKGIGMAKVMEAINRYRE  161 (369)
T ss_dssp             HTTTCCCSEEEECBTTTTBTHHHHHHHHHHHHT
T ss_pred             HHcCCCcccEEEEECCCCCCHHHHHHHHHhhcc
Confidence            77787   7899999999999999999877653

>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=98.67  E-value=5.3e-08  Score=87.30  Aligned_cols=143  Identities=13%  Similarity=0.153  Sum_probs=72.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCC--CcceeeEEEEEEE--CCeEEEEEEEeCCCcccc-------c-----
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSP--GEGLNMMDKTLLV--RGARISYSIWEVTGDAKA-------Q-----  146 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~--t~~~~~~~~~~~~--~~~~~~l~i~Dt~G~~~~-------~-----  146 (268)
                      .++++|+|.+|+|||||++.+.+..+......  +.+.......+..  .+....+.++|+.|-...       .     
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~i~~~  121 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPIVEF  121 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhHHHHH
Confidence            36799999999999999999988754321111  1121111111222  223346889999874321       0     


Q ss_pred             ------cchhhh---------hcCC--cE-EEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccch
Q 041042          147 ------DHLPVA---------CKDS--IA-ILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQ  208 (268)
Q Consensus       147 ------~~~~~~---------~~~a--~~-vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~  208 (268)
                            .+...+         ..++  |+ ++++.|....-+-.+    ++.++......++|+|.||+|.   +.....
T Consensus       122 i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~D----ieilk~L~~~~~vI~Vi~KtD~---Lt~~E~  194 (427)
T 2qag_B          122 IDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLD----LVTMKKLDSKVNIIPIIAKADA---ISKSEL  194 (427)
T ss_dssp             HHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHH----HHHHHHTCSCSEEEEEESCGGG---SCHHHH
T ss_pred             HHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHH----HHHHHHHhhCCCEEEEEcchhc---cchHHH
Confidence                  001111         1122  33 555556543322222    2223333445566799999996   444333


Q ss_pred             hchHHHHHHHHHHhCCeEEEEcCC
Q 041042          209 WTIASQARAYAKALNATLFFSSAT  232 (268)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~~Sa~  232 (268)
                      ......+..-....|++++.+|..
T Consensus       195 ~~l~~~I~~~L~~~gi~I~~is~~  218 (427)
T 2qag_B          195 TKFKIKITSELVSNGVQIYQFPTD  218 (427)
T ss_dssp             HHHHHHHHHHHBTTBCCCCCCC--
T ss_pred             HHHHHHHHHHHHHcCCcEEecCCC
Confidence            333445554445578888887753

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.59  E-value=1.1e-07  Score=80.66  Aligned_cols=139  Identities=9%  Similarity=0.156  Sum_probs=73.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCC---------CCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc-------
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQG---------GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ-------  146 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~---------~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-------  146 (268)
                      .++++|+|++|+|||||++.+.+......         ...+...........-.+....+.++|+.|-....       
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~   81 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWE   81 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHH
Confidence            48999999999999999999987432111         01111000000000111222367899998732110       


Q ss_pred             cch---------------------hhhhcCCcEEEEEEeCC-ChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCC
Q 041042          147 DHL---------------------PVACKDSIAILFMFDLT-SRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLP  204 (268)
Q Consensus       147 ~~~---------------------~~~~~~a~~vilv~D~~-~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~  204 (268)
                      .+.                     +..+..+++++++.|.. ..-+-.+ ...+..+..   ...+|+|.||+|.   +.
T Consensus        82 ~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD-~~~l~~L~~---~~~vI~Vi~K~D~---lt  154 (270)
T 3sop_A           82 PIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD-LEFMKHLSK---VVNIIPVIAKADT---MT  154 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH-HHHHHHHHT---TSEEEEEETTGGG---SC
T ss_pred             HHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH-HHHHHHHHh---cCcEEEEEecccc---CC
Confidence            000                     01123468889999854 2111111 223333332   3555799999997   44


Q ss_pred             ccchhchHHHHHHHHHHhCCeEEE
Q 041042          205 IDLQWTIASQARAYAKALNATLFF  228 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~  228 (268)
                      .+........+.+..+.+++.+|.
T Consensus       155 ~~e~~~~k~~i~~~l~~~~i~i~~  178 (270)
T 3sop_A          155 LEEKSEFKQRVRKELEVNGIEFYP  178 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCSS
T ss_pred             HHHHHHHHHHHHHHHHHcCccccC
Confidence            443333456666667777887664

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.50  E-value=1.7e-07  Score=85.99  Aligned_cols=150  Identities=14%  Similarity=0.121  Sum_probs=83.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHh------cCCC---CC-CCCCCc-----------ceeeEEEEEE-------------EC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYV------GDEK---EQ-GGSPGE-----------GLNMMDKTLL-------------VR  128 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~------~~~~---~~-~~~~t~-----------~~~~~~~~~~-------------~~  128 (268)
                      ...|+++|.+||||||++++|.      +.+.   .. .+.+..           +..+......             ..
T Consensus       101 ~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~~~  180 (504)
T 2j37_W          101 QNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKFK  180 (504)
T ss_dssp             -EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHHHH
Confidence            4689999999999999999998      3321   00 111100           1111110000             00


Q ss_pred             CeEEEEEEEeCCCccccc-cchhh---h--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCC
Q 041042          129 GARISYSIWEVTGDAKAQ-DHLPV---A--CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFI  201 (268)
Q Consensus       129 ~~~~~l~i~Dt~G~~~~~-~~~~~---~--~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~  201 (268)
                      ...+.+.|+||+|..... .+...   .  +..+|.+++|+|++......   .....+..   ..++ +||.||+|.. 
T Consensus       181 ~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~---~~a~~~~~---~~~i~gvVlNK~D~~-  253 (504)
T 2j37_W          181 NENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACE---AQAKAFKD---KVDVASVIVTKLDGH-  253 (504)
T ss_dssp             HTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHH---HHHHHHHH---HHCCCCEEEECTTSC-
T ss_pred             HCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHH---HHHHHHHh---hcCceEEEEeCCccc-
Confidence            023468899999965321 11111   1  23789999999987654311   11222222   1243 6999999962 


Q ss_pred             CCCccchhchHHHHHHHHHHhCCeE------------------EEEcCCCCcC-HHHHHHHHHHH
Q 041042          202 QLPIDLQWTIASQARAYAKALNATL------------------FFSSATYNIN-VNKILKFITAK  247 (268)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~Sa~~~~~-i~~~f~~l~~~  247 (268)
                         .  ..   ..+.......+.++                  +.+|+.+|.| +.++++++.+.
T Consensus       254 ---~--~~---g~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          254 ---A--KG---GGALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             ---C--CC---THHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             ---c--ch---HHHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence               1  11   11222334455543                  2378999999 99999888765

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.49  E-value=1.2e-08  Score=90.46  Aligned_cols=137  Identities=11%  Similarity=0.159  Sum_probs=76.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC------CCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc--------h
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD------EKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH--------L  149 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~------~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~--------~  149 (268)
                      .+|+++|.+|||||||+|++.+.      .......+  |.+.....+.++..   +.++||||-.....+        .
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~--gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l  237 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFP--GTTLDMIEIPLESG---ATLYDTPGIINHHQMAHFVDARDL  237 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECT--TSSCEEEEEECSTT---CEEEECCSCCCCSSGGGGSCTTTH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCC--CeEEeeEEEEeCCC---eEEEeCCCcCcHHHHHHHHhHHHH
Confidence            47999999999999999999875      22222222  22233333444432   689999995432211        1


Q ss_pred             hhhh--cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeE
Q 041042          150 PVAC--KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATL  226 (268)
Q Consensus       150 ~~~~--~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  226 (268)
                      ..++  +..+.++++.|....--+..+..    +..... +.+.+++.||.|.   +   ...........+.+..|...
T Consensus       238 ~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~---~---~~~~~~~~~~~~~~~~g~~l  307 (369)
T 3ec1_A          238 KIITPKREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELT---V---HRTKLEKADSLYANQLGELL  307 (369)
T ss_dssp             HHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSC---E---EEEEGGGHHHHHHHHBTTTB
T ss_pred             HHHhcccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCcc---c---ccccHHHHHHHHHHhcCCcc
Confidence            1222  67889999998732211111110    111112 3344699999996   2   22233444555667777665


Q ss_pred             EEEcCCCCc
Q 041042          227 FFSSATYNI  235 (268)
Q Consensus       227 ~~~Sa~~~~  235 (268)
                      ...++.+..
T Consensus       308 ~p~~~~~~~  316 (369)
T 3ec1_A          308 SPPSKRYAA  316 (369)
T ss_dssp             CSSCGGGTT
T ss_pred             CCCCchhhh
Confidence            555554433

>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=98.45  E-value=2.1e-06  Score=76.89  Aligned_cols=162  Identities=12%  Similarity=0.113  Sum_probs=88.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCc-ceee--EEEEEEECCeEEEEEEEeCCCccccccchhhh-----hcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE-GLNM--MDKTLLVRGARISYSIWEVTGDAKAQDHLPVA-----CKD  155 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~-~~~~--~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~-----~~~  155 (268)
                      ..++|+|.+|+|||||+|.+.+-.....-.-++ |.+.  ...... +...-.+.+||++|-.........+     +..
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q-~~~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~~  148 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYK-HPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYE  148 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEE-CSSCTTEEEEECCCGGGSSCCHHHHHHHTTGGG
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEecc-ccccCCeeehHhhcccchHHHHHHHHHHcCCCc
Confidence            379999999999999999998843211111011 1111  001111 1111146789999853211111222     233


Q ss_pred             CcEEEEEEeCC--ChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCC------CCCCccchhchHHHHHHHHH----HhC
Q 041042          156 SIAILFMFDLT--SRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF------IQLPIDLQWTIASQARAYAK----ALN  223 (268)
Q Consensus       156 a~~vilv~D~~--~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~------~~~~~~~~~~~~~~~~~~~~----~~~  223 (268)
                      .+.+++ ++..  ..... .+..++   ..  .+.+.++|.||.|+.      ..+....+....+.+.+++.    +.|
T Consensus       149 ~~~~~~-lS~G~~~kqrv-~la~aL---~~--~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g  221 (413)
T 1tq4_A          149 YDFFII-ISATRFKKNDI-DIAKAI---SM--MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENG  221 (413)
T ss_dssp             CSEEEE-EESSCCCHHHH-HHHHHH---HH--TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             cCCeEE-eCCCCccHHHH-HHHHHH---Hh--cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcC
Confidence            455554 7765  32222 122222   22  134557999999952      12222334444555666652    333


Q ss_pred             ---CeEEEEcC--CCCcCHHHHHHHHHHHHhcCcc
Q 041042          224 ---ATLFFSSA--TYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       224 ---~~~~~~Sa--~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                         ...+.+|+  ..+.|++++.+.+.+.+.+.++
T Consensus       222 ~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpeg~~  256 (413)
T 1tq4_A          222 IAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYKR  256 (413)
T ss_dssp             CSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGGH
T ss_pred             CCCCcEEEEecCcCCccCHHHHHHHHHHhCccchh
Confidence               35788999  6667799999999988876653

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.44  E-value=1.1e-08  Score=90.46  Aligned_cols=134  Identities=10%  Similarity=0.084  Sum_probs=71.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-----CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc----hh----
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-----QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH----LP----  150 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-----~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~----~~----  150 (268)
                      .+|+++|.+|||||||+|++.+....     .......|.+.....+.++..   +.++||||-.....+    ..    
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~  237 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQSLK  237 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHHHH
Confidence            57999999999999999999875311     101111122333333444433   779999996432211    11    


Q ss_pred             hh--hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhC-CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEE
Q 041042          151 VA--CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLF  227 (268)
Q Consensus       151 ~~--~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (268)
                      .+  .+..+.+++++|....--+..+..    +.... ...+.+++.||.|.      -...........+.+..|....
T Consensus       238 ~~~~~~~i~~~~~~l~~~~~~~~g~l~~----~d~l~~~~~~~~~v~nk~d~------~~~~~~~~~~~~~~~~~g~~l~  307 (368)
T 3h2y_A          238 LITPTKEIKPMVFQLNEEQTLFFSGLAR----FDYVSGGRRAFTCHFSNRLT------IHRTKLEKADELYKNHAGDLLS  307 (368)
T ss_dssp             HHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSC------EEEEEHHHHHHHHHHHBTTTBC
T ss_pred             HhccccccCceEEEEcCCCEEEEcceEE----EEEecCCCceEEEEecCccc------cccccHHHHHHHHHHHhCCccC
Confidence            11  256788888888632111111110    11111 23344699999996      2233345555566666776544


Q ss_pred             EEc
Q 041042          228 FSS  230 (268)
Q Consensus       228 ~~S  230 (268)
                      ..+
T Consensus       308 p~~  310 (368)
T 3h2y_A          308 PPT  310 (368)
T ss_dssp             SSC
T ss_pred             CCc
Confidence            444

>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=98.40  E-value=4.4e-07  Score=77.28  Aligned_cols=101  Identities=13%  Similarity=0.038  Sum_probs=68.4

Q ss_pred             EEeCCCcc-ccccchhhhhcCCcEEEEEEeCCChhhHH--HHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchH
Q 041042          136 IWEVTGDA-KAQDHLPVACKDSIAILFMFDLTSRCTLK--SVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIA  212 (268)
Q Consensus       136 i~Dt~G~~-~~~~~~~~~~~~a~~vilv~D~~~~~s~~--~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~  212 (268)
                      |-..||+. .........+..+|+++.|+|+.++.+..  .+..|+       .+.+.++|+||+||   .+.   . ..
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l-------~~kp~ilVlNK~DL---~~~---~-~~   68 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL-------KNKPRIMLLNKADK---ADA---A-VT   68 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC-------SSSCEEEEEECGGG---SCH---H-HH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH-------CCCCEEEEEECccc---CCH---H-HH
Confidence            34467765 33445566789999999999999987764  344443       45667899999997   221   1 12


Q ss_pred             HHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          213 SQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       213 ~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      +...++.+..+++++.+||+++.|++++++.+.+.+.+
T Consensus        69 ~~~~~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~  106 (282)
T 1puj_A           69 QQWKEHFENQGIRSLSINSVNGQGLNQIVPASKEILQE  106 (282)
T ss_dssp             HHHHHHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCcEEEEECCCcccHHHHHHHHHHHHHH
Confidence            33344455568899999999999999999988776653

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.33  E-value=2.1e-07  Score=78.51  Aligned_cols=57  Identities=14%  Similarity=0.222  Sum_probs=36.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK  144 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~  144 (268)
                      ++++++|.+|||||||+|++.+.... ...++.|.+.....+.++.   .+.+|||+|...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~-~~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~  156 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRAS-SVGAQPGITKGIQWFSLEN---GVKILDTPGILY  156 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEECC
T ss_pred             hheEEeCCCCCCHHHHHHHHhccccc-ccCCCCCCccceEEEEeCC---CEEEEECCCccc
Confidence            69999999999999999999987652 2233334443333333332   478999999654

>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=98.21  E-value=1.1e-06  Score=74.73  Aligned_cols=57  Identities=16%  Similarity=0.365  Sum_probs=34.9

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA  143 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~  143 (268)
                      ..++|+++|.+|||||||+|++.+... .....+  |.+.....+.++.   .+.+|||||..
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~--g~T~~~~~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRP--GITTSQQWVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSCCC--------------CCEEETT---TEEEEECCCCC
T ss_pred             CCceEEEEecCCCchHHHHHHHhcCceeecCCCC--CeeeeeEEEEeCC---CEEEEECcCcC
Confidence            358999999999999999999998752 222222  2222222223322   47799999964

>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=98.19  E-value=2.1e-08  Score=91.63  Aligned_cols=101  Identities=14%  Similarity=0.067  Sum_probs=64.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccc--cccch--------hhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK--AQDHL--------PVA  152 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--~~~~~--------~~~  152 (268)
                      .++|+++|.+|+||||+.++|...-. ....++.+.+.........+......+||..|++.  ++..+        ..+
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~-~~~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~~  117 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLN-FIGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRKF  117 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHh-ccCCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            47999999999999999999876422 11223322221100001112223356899999843  23332        567


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhC
Q 041042          153 CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN  185 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~  185 (268)
                      +..+++.++|+|.++. +++....|++.+++..
T Consensus       118 l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~~  149 (469)
T 1bif_A          118 LSEEGGHVAVFDATNT-TRERRAMIFNFGEQNG  149 (469)
T ss_dssp             HHTTCCSEEEEESCCC-SHHHHHHHHHHHHHHT
T ss_pred             HHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhcC
Confidence            7778899999999987 6777778888777653

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=97.98  E-value=1.5e-06  Score=78.35  Aligned_cols=83  Identities=19%  Similarity=0.127  Sum_probs=46.4

Q ss_pred             EEEEEEeCCCcccccc-chh-----hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCC-c-eEEEEeCCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQD-HLP-----VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA-I-PIIIGTKFDDFIQL  203 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~-~~~-----~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~-~-~ilvgnK~Dl~~~~  203 (268)
                      +.+.|+||+|...... +..     ..+..+|.+++|.|.+....   ....   +..+.... + ..+|.||+|..   
T Consensus       181 ~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~---~~~~~~~~~~i~gvVlnK~D~~---  251 (432)
T 2v3c_C          181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQ---AKAFKEAVGEIGSIIVTKLDGS---  251 (432)
T ss_dssp             CSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHH---HHHHHTTSCSCEEEEEECSSSC---
T ss_pred             CCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHH---HHHHhhcccCCeEEEEeCCCCc---
Confidence            4578999999654211 111     11236899999999865432   1122   22333333 4 36999999951   


Q ss_pred             CccchhchHHHHHHHHHHhCCeEEEE
Q 041042          204 PIDLQWTIASQARAYAKALNATLFFS  229 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~  229 (268)
                         ..   ...+..+....+.++..+
T Consensus       252 ---~~---~g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          252 ---AK---GGGALSAVAETKAPIKFI  271 (432)
T ss_dssp             ---ST---THHHHHHHHHSSCCEEEE
T ss_pred             ---cc---hHHHHHHHHHHCCCEEEe
Confidence               11   122334666777776555

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.97  E-value=6.1e-06  Score=74.29  Aligned_cols=92  Identities=16%  Similarity=0.121  Sum_probs=53.5

Q ss_pred             EEEEEEeCCCcccccc-----chh-hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQD-----HLP-VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLP  204 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~-----~~~-~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~  204 (268)
                      +.+.|+||+|......     +.. .....+|.+++|.|++....-.   .....+..   ...+ .||.||.|.     
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~---~~a~~f~~---~~~i~gVIlTKlD~-----  251 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAY---NQALAFKE---ATPIGSIIVTKLDG-----  251 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHH---HHHHHHHH---SCTTEEEEEECCSS-----
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHH---HHHHHHHh---hCCCeEEEEECCCC-----
Confidence            5688999999433211     111 1123679999999987643321   12222222   2334 599999995     


Q ss_pred             ccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          205 IDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                       ..   ....+.......+.|+.+++.  |++++++
T Consensus       252 -~~---~gG~~ls~~~~~g~PI~fig~--Ge~vddL  281 (443)
T 3dm5_A          252 -SA---KGGGALSAVAATGAPIKFIGT--GEKIDDI  281 (443)
T ss_dssp             -CS---SHHHHHHHHHTTCCCEEEEEC--SSSTTCE
T ss_pred             -cc---cccHHHHHHHHHCCCEEEEEc--CCChHHh
Confidence             11   123345566678999888775  6665443

>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=97.86  E-value=1e-05  Score=69.52  Aligned_cols=92  Identities=11%  Similarity=0.079  Sum_probs=61.5

Q ss_pred             ccchhhhhcCCcEEEEEEeCCChhh-HHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCC
Q 041042          146 QDHLPVACKDSIAILFMFDLTSRCT-LKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNA  224 (268)
Q Consensus       146 ~~~~~~~~~~a~~vilv~D~~~~~s-~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  224 (268)
                      ..+.+....++|.+++|+|+.++.. ...+.+++..+.  ..+.+|+||.||+||   .++.......+...++.+..|.
T Consensus        77 ~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~--~~~~~~vivlnK~DL---~~~~~~~~~~~~~~~~y~~~g~  151 (307)
T 1t9h_A           77 NELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVE--ANDIQPIICITKMDL---IEDQDTEDTIQAYAEDYRNIGY  151 (307)
T ss_dssp             CEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHH--TTTCEEEEEEECGGG---CCCHHHHHHHHHHHHHHHHHTC
T ss_pred             hhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHH--HCCCCEEEEEECCcc---CchhhhHHHHHHHHHHHHhCCC
Confidence            4455567889999999999987653 445555554333  346778999999997   3221100112334455556788


Q ss_pred             eEEEEcCCCCcCHHHHHH
Q 041042          225 TLFFSSATYNINVNKILK  242 (268)
Q Consensus       225 ~~~~~Sa~~~~~i~~~f~  242 (268)
                      +.+.+||+++.|+++++.
T Consensus       152 ~v~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          152 DVYLTSSKDQDSLADIIP  169 (307)
T ss_dssp             CEEECCHHHHTTCTTTGG
T ss_pred             eEEEEecCCCCCHHHHHh
Confidence            999999999988877654

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.77  E-value=1.7e-05  Score=66.70  Aligned_cols=91  Identities=10%  Similarity=-0.000  Sum_probs=60.0

Q ss_pred             CCCcccc-ccchhhhhcCCcEEEEEEeCCChhhHHH--HHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHH
Q 041042          139 VTGDAKA-QDHLPVACKDSIAILFMFDLTSRCTLKS--VIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQA  215 (268)
Q Consensus       139 t~G~~~~-~~~~~~~~~~a~~vilv~D~~~~~s~~~--~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~  215 (268)
                      .||+... .......+.++|+++.|+|+.++.+..+  +. |+        +.++++|.||+||   .+.   . ..+..
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~l~-ll--------~k~~iivlNK~DL---~~~---~-~~~~~   67 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYGVD-FS--------RKETIILLNKVDI---ADE---K-TTKKW   67 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTTSC-CT--------TSEEEEEEECGGG---SCH---H-HHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChHHH-hc--------CCCcEEEEECccC---CCH---H-HHHHH
Confidence            3555432 2345567889999999999998876542  22 21        5567899999997   221   1 12233


Q ss_pred             HHHHHHhCCeEEEEcCCCCcCHHHHHHHHHH
Q 041042          216 RAYAKALNATLFFSSATYNINVNKILKFITA  246 (268)
Q Consensus       216 ~~~~~~~~~~~~~~Sa~~~~~i~~~f~~l~~  246 (268)
                      .++.++.|.++ .+||+++.|++++++.+..
T Consensus        68 ~~~~~~~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           68 VEFFKKQGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             HHHHHHTTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             HHHHHHcCCeE-EEECCCCcCHHHHHHHHHH
Confidence            44555668888 9999999999999877643

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=97.76  E-value=3.5e-05  Score=71.87  Aligned_cols=64  Identities=11%  Similarity=0.081  Sum_probs=39.0

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCc-ceeeEEEE--EEE-CCeEEEEEEEeCCCccc
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGE-GLNMMDKT--LLV-RGARISYSIWEVTGDAK  144 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~-~~~~~~~~--~~~-~~~~~~l~i~Dt~G~~~  144 (268)
                      ....+|+|+|.+|||||||+|++.+....-....|+ +.+.....  ..+ ......+.++||+|...
T Consensus        36 ~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           36 QPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCc
Confidence            345889999999999999999999876321222221 11111111  111 12234578999999653

>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=97.70  E-value=4.7e-05  Score=65.18  Aligned_cols=92  Identities=15%  Similarity=0.125  Sum_probs=55.5

Q ss_pred             EEEEEEeCCCccc--cc-cchh-----hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCC
Q 041042          132 ISYSIWEVTGDAK--AQ-DHLP-----VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQ  202 (268)
Q Consensus       132 ~~l~i~Dt~G~~~--~~-~~~~-----~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~  202 (268)
                      +.+.++||+|...  .. .+..     .....+|.+++|.|.+...   +.......+..   ..++ .+|.||.|..  
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~---~~~~~~~~~~~---~~~i~gvVlnk~D~~--  252 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQ---KAYDLASKFNQ---ASKIGTIIITKMDGT--  252 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGG---GHHHHHHHHHH---TCTTEEEEEECGGGC--
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchH---HHHHHHHHHHh---hCCCCEEEEeCCCCC--
Confidence            4588999999765  21 1211     1245789999999986432   22222222222   3343 5899999941  


Q ss_pred             CCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                           .  ....+..++...+.++..++  +|++++++
T Consensus       253 -----~--~~g~~~~~~~~~~~pi~~i~--~Ge~v~dl  281 (297)
T 1j8m_F          253 -----A--KGGGALSAVAATGATIKFIG--TGEKIDEL  281 (297)
T ss_dssp             -----T--THHHHHHHHHTTTCCEEEEE--CSSSTTCE
T ss_pred             -----c--chHHHHHHHHHHCcCEEEEe--CCCChhhc
Confidence                 1  12345567788899988876  57777554

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=97.69  E-value=1.9e-05  Score=71.05  Aligned_cols=92  Identities=15%  Similarity=0.159  Sum_probs=53.0

Q ss_pred             EEEEEEEeCCCccc--cc-cchh---h--hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCC
Q 041042          131 RISYSIWEVTGDAK--AQ-DHLP---V--ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQ  202 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~--~~-~~~~---~--~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~  202 (268)
                      .+.+.+.||+|...  .. .+..   .  -....+.+++|.|.+....-.   .....+...  -.+-.||.||.|.   
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~---~~a~~f~~~--~~~~gVIlTKlD~---  250 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAY---DLASRFHQA--SPIGSVIITKMDG---  250 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGH---HHHHHHHHH--CSSEEEEEECGGG---
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHH---HHHHHHhcc--cCCcEEEEecccc---
Confidence            34577999999533  11 1111   1  112568999999987643322   222223221  1233699999994   


Q ss_pred             CCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                         .   .....+.......+.|+.+++.  |++++
T Consensus       251 ---~---a~~G~als~~~~~g~Pi~fig~--Ge~v~  278 (433)
T 3kl4_A          251 ---T---AKGGGALSAVVATGATIKFIGT--GEKID  278 (433)
T ss_dssp             ---C---SCHHHHHHHHHHHTCEEEEEEC--CSSSS
T ss_pred             ---c---ccchHHHHHHHHHCCCEEEEEC--CCChH
Confidence               1   1123455666778999888875  66653

>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=97.51  E-value=0.00053  Score=60.04  Aligned_cols=86  Identities=10%  Similarity=0.108  Sum_probs=56.3

Q ss_pred             hhhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEE
Q 041042          151 VACKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFS  229 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  229 (268)
                      ....++|.+++|... ++. +...+.+++-.....  +.+||||.||+||   .+++ .....++.....+..|++.+.+
T Consensus       126 ~i~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~~~--~~~~iivlNK~DL---~~~~-~~~~~~~~~~~y~~~G~~v~~~  198 (358)
T 2rcn_A          126 PIAANIDQIVIVSAI-LPELSLNIIDRYLVGCETL--QVEPLIVLNKIDL---LDDE-GMDFVNEQMDIYRNIGYRVLMV  198 (358)
T ss_dssp             EEEECCCEEEEEEES-TTTCCHHHHHHHHHHHHHH--TCEEEEEEECGGG---CCHH-HHHHHHHHHHHHHTTTCCEEEC
T ss_pred             HHHhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHhc--CCCEEEEEECccC---CCch-hHHHHHHHHHHHHhCCCcEEEE
Confidence            346889999988665 454 445555665544332  5677999999997   3321 1111222233345678999999


Q ss_pred             cCCCCcCHHHHHHH
Q 041042          230 SATYNINVNKILKF  243 (268)
Q Consensus       230 Sa~~~~~i~~~f~~  243 (268)
                      ||+++.|++++...
T Consensus       199 Sa~~~~gl~~L~~~  212 (358)
T 2rcn_A          199 SSHTQDGLKPLEEA  212 (358)
T ss_dssp             BTTTTBTHHHHHHH
T ss_pred             ecCCCcCHHHHHHh
Confidence            99999999988654

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=97.24  E-value=0.00017  Score=62.59  Aligned_cols=91  Identities=15%  Similarity=0.223  Sum_probs=53.0

Q ss_pred             EEEEeCCCcccccc-chhh-----hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccc
Q 041042          134 YSIWEVTGDAKAQD-HLPV-----ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDL  207 (268)
Q Consensus       134 l~i~Dt~G~~~~~~-~~~~-----~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~  207 (268)
                      +.+.||+|...... +...     -.-..|-.+++.|.+...   ++......+.+.  ..+-+|+.||.|.      . 
T Consensus       214 ~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~---~~~~~~~~~~~~--~~it~iilTKlD~------~-  281 (328)
T 3e70_C          214 VVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGN---AIVEQARQFNEA--VKIDGIILTKLDA------D-  281 (328)
T ss_dssp             EEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTT---HHHHHHHHHHHH--SCCCEEEEECGGG------C-
T ss_pred             hhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHH---HHHHHHHHHHHh--cCCCEEEEeCcCC------c-
Confidence            55799999643221 1111     012478889999976543   222333333221  2344799999993      1 


Q ss_pred             hhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          208 QWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      .  ....+...+...+.++..++  +|++++++
T Consensus       282 a--~~G~~l~~~~~~~~pi~~i~--~Ge~v~dl  310 (328)
T 3e70_C          282 A--RGGAALSISYVIDAPILFVG--VGQGYDDL  310 (328)
T ss_dssp             S--CCHHHHHHHHHHTCCEEEEE--CSSSTTCE
T ss_pred             c--chhHHHHHHHHHCCCEEEEe--CCCCcccc
Confidence            1  12335567788899988877  77777554

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.13  E-value=0.00053  Score=64.43  Aligned_cols=23  Identities=39%  Similarity=0.576  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .++|+|++|+|||||++.+.+-.
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC
T ss_pred             eEEEECCCCChHHHHHHHHhCCC
Confidence            49999999999999999998864

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=96.94  E-value=0.00076  Score=60.79  Aligned_cols=64  Identities=11%  Similarity=0.191  Sum_probs=39.7

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcC------------------CCCCC---CCCCcceeeEEEEE--E-ECCeEEEEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGD------------------EKEQG---GSPGEGLNMMDKTL--L-VRGARISYSI  136 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~------------------~~~~~---~~~t~~~~~~~~~~--~-~~~~~~~l~i  136 (268)
                      .+..-|.|+|.+++|||+|+|++++.                  .|...   ...|.|+-.....+  . .++....+.+
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg~~~~~~~~~wl~~~~~~~~~f~~~~t~~~~T~GIw~~~~p~~~~~~~~~~~~vvl  144 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLL  144 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHHHHHCCSTTTSSCCTTSBCCSSCSCCSSCCCCCEEEEESSCEEEECSSSCEEEEEE
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhhhcccccccccccccccccceecCCCCCCCceeEEEEecCccccccCCCCcceEEE
Confidence            34567889999999999999999852                  23211   11233332211111  1 1456788999


Q ss_pred             EeCCCccc
Q 041042          137 WEVTGDAK  144 (268)
Q Consensus       137 ~Dt~G~~~  144 (268)
                      .||+|...
T Consensus       145 lDTeG~~~  152 (447)
T 3q5d_A          145 MDTQGTFD  152 (447)
T ss_dssp             EEEECCCS
T ss_pred             EcCCcccc
Confidence            99999643

>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=96.66  E-value=0.00088  Score=52.69  Aligned_cols=23  Identities=35%  Similarity=0.598  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+++++|++|+|||||++.+.+.
T Consensus         1 ~~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999988764

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.56  E-value=0.0026  Score=57.23  Aligned_cols=63  Identities=13%  Similarity=0.094  Sum_probs=36.0

Q ss_pred             EEEEEEEeCCCccccc-cchh-----hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCC
Q 041042          131 RISYSIWEVTGDAKAQ-DHLP-----VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDD  199 (268)
Q Consensus       131 ~~~l~i~Dt~G~~~~~-~~~~-----~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl  199 (268)
                      .+.+.|+||+|..... .+..     .....++.+++|.|.......   ......+.   ...++ -+|.||.|.
T Consensus       183 ~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~---~~~~~~f~---~~l~i~gvVlnK~D~  252 (433)
T 2xxa_A          183 FYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDA---ANTAKAFN---EALPLTGVVLTKVDG  252 (433)
T ss_dssp             TCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTH---HHHHHHHH---HHSCCCCEEEECTTS
T ss_pred             CCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHH---HHHHHHHh---ccCCCeEEEEecCCC
Confidence            3458899999964432 1111     124478899999998644322   12222222   22233 389999994

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.44  E-value=0.0014  Score=51.36  Aligned_cols=22  Identities=18%  Similarity=0.424  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|++|||||||++.+.+.
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            6899999999999999998763

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.33  E-value=0.0018  Score=51.71  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .++|+|++|+|||||++.+.+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            689999999999999999876

>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=96.16  E-value=0.0026  Score=49.92  Aligned_cols=23  Identities=22%  Similarity=0.154  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.++|+|.+|+|||||++.+.+.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            46899999999999999999775

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.11  E-value=0.0026  Score=50.46  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|.+|+|||||++.+.+.
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            5889999999999999998764

>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=96.09  E-value=0.0027  Score=50.86  Aligned_cols=22  Identities=18%  Similarity=0.302  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|++|+|||||++.+.+-
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5889999999999999998764

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.09  E-value=0.0027  Score=49.32  Aligned_cols=20  Identities=30%  Similarity=0.529  Sum_probs=17.7

Q ss_pred             EEEEEcCCCChHHHHHHHHh
Q 041042           85 KISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~  104 (268)
                      -++++|.+|+|||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            57899999999999999754

>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=96.08  E-value=0.0028  Score=50.66  Aligned_cols=24  Identities=13%  Similarity=0.379  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .--|+|+|++|||||||++.|.+.
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhh
Confidence            346899999999999999999754

>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=96.07  E-value=0.0028  Score=51.53  Aligned_cols=23  Identities=13%  Similarity=0.173  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      --++|+|++|+|||||++.+.+.
T Consensus        17 ~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           17 TLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            36889999999999999998764

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.00  E-value=0.0031  Score=51.08  Aligned_cols=22  Identities=18%  Similarity=0.523  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|++|+|||||++.+.+-
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5889999999999999998764

>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=95.99  E-value=0.0037  Score=49.50  Aligned_cols=21  Identities=29%  Similarity=0.544  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+|+|++|||||||++++...
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            789999999999999999754

>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=95.88  E-value=0.0039  Score=50.04  Aligned_cols=22  Identities=32%  Similarity=0.371  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|+|+|++|+|||||++.+.+.
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            5889999999999999999765

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=95.83  E-value=0.0045  Score=54.11  Aligned_cols=23  Identities=26%  Similarity=0.443  Sum_probs=21.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .++++|.+|||||||+|.+.+..
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            68999999999999999998764

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.82  E-value=0.0044  Score=47.69  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=20.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .++++|+.|+|||||++.+.+..
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            58899999999999999987754

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.82  E-value=0.0038  Score=50.00  Aligned_cols=24  Identities=17%  Similarity=0.212  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ...|.|+|.+|+|||||++.+.+-
T Consensus        22 g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           22 RQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988653

>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=95.79  E-value=0.0061  Score=48.35  Aligned_cols=21  Identities=24%  Similarity=0.194  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++.|++|+|||+|++.+...
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988653

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=95.78  E-value=0.0047  Score=50.73  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5789999999999999988664

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.70  E-value=0.0052  Score=47.34  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..|+|+|.+|+||||+.+.+.+.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999988653

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.69  E-value=0.0057  Score=48.78  Aligned_cols=23  Identities=17%  Similarity=0.437  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-|+|+|.+|||||||++.+...
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            45899999999999999998653

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.67  E-value=0.0053  Score=50.02  Aligned_cols=22  Identities=23%  Similarity=0.200  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988664

>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=95.67  E-value=0.0059  Score=46.80  Aligned_cols=21  Identities=24%  Similarity=0.044  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+|.|.+||||||+.+.|..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999864

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.63  E-value=0.0063  Score=50.15  Aligned_cols=22  Identities=41%  Similarity=0.486  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++++|+.|+|||||++.+.+-
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998774

>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=95.63  E-value=0.0056  Score=48.03  Aligned_cols=21  Identities=14%  Similarity=0.297  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -++++|.+|+|||||++.+.+
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999999975

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.63  E-value=0.0055  Score=48.58  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      ..|+|+|.+|+||||+++.+.+.-
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            468999999999999999987653

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.61  E-value=0.0051  Score=48.78  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++++|.+|+|||||++.+.+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            5889999999999999988763

>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=95.60  E-value=0.0064  Score=46.54  Aligned_cols=20  Identities=25%  Similarity=0.223  Sum_probs=18.3

Q ss_pred             EEEEEEcCCCChHHHHHHHH
Q 041042           84 LKISLLGDCHIGKTSFLEKY  103 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l  103 (268)
                      .-|+|+|.+|+||||+.+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            35889999999999999998

>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=95.60  E-value=0.0072  Score=49.66  Aligned_cols=21  Identities=24%  Similarity=0.381  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHh
Q 041042           84 LKISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~  104 (268)
                      ..|+|+|.+|+|||||++.+.
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999997

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.58  E-value=0.006  Score=48.47  Aligned_cols=22  Identities=18%  Similarity=0.270  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      --|+|+|.+|+|||||++.+.+
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998865

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.56  E-value=0.007  Score=46.74  Aligned_cols=22  Identities=18%  Similarity=0.332  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .-|++.|.+|+||||+.+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4589999999999999999976

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.55  E-value=0.0065  Score=50.74  Aligned_cols=22  Identities=32%  Similarity=0.356  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|+.|+|||||++.+.+-
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999988764

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.54  E-value=0.0069  Score=49.05  Aligned_cols=22  Identities=27%  Similarity=0.374  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998764

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=95.54  E-value=0.0072  Score=49.66  Aligned_cols=22  Identities=23%  Similarity=0.531  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6789999999999999998664

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.54  E-value=0.0069  Score=48.55  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ++|+|.|.+|+||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998854

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.51  E-value=0.0073  Score=48.19  Aligned_cols=23  Identities=22%  Similarity=0.367  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...|.|+|.+|+|||||++.+.+
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998865

>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=95.51  E-value=0.0075  Score=48.38  Aligned_cols=22  Identities=27%  Similarity=0.318  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ++|+|+|.+|+||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998854

>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=95.51  E-value=0.003  Score=54.08  Aligned_cols=23  Identities=22%  Similarity=0.377  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.++++|.+|||||||+|.+.+.
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHhccc
Confidence            37899999999999999999775

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=95.50  E-value=0.0077  Score=49.67  Aligned_cols=22  Identities=18%  Similarity=0.159  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6889999999999999998764

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=95.49  E-value=0.0076  Score=49.86  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998664

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=95.48  E-value=0.0072  Score=50.91  Aligned_cols=22  Identities=23%  Similarity=0.564  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999988764

>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=95.47  E-value=0.0058  Score=47.59  Aligned_cols=23  Identities=17%  Similarity=0.287  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.++++|++|+|||+|++.+.+.
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988654

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=95.46  E-value=0.0072  Score=50.29  Aligned_cols=22  Identities=18%  Similarity=0.309  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998764

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=95.43  E-value=0.02  Score=42.85  Aligned_cols=22  Identities=9%  Similarity=0.107  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .|++.|++|+|||++++.+...
T Consensus        29 ~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           29 PVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             CEEEEEETTCCHHHHHGGGCCT
T ss_pred             cEEEECCCCccHHHHHHHHHHh
Confidence            5899999999999999877543

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=95.43  E-value=0.0069  Score=51.60  Aligned_cols=23  Identities=22%  Similarity=0.239  Sum_probs=20.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      -++++|.+|||||||++.+.+..
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCcHHHHHHHhcccc
Confidence            67899999999999999997753

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=95.42  E-value=0.0077  Score=50.36  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Confidence            4779999999999999988764

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=95.42  E-value=0.0077  Score=50.43  Aligned_cols=22  Identities=23%  Similarity=0.474  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4779999999999999998774

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=95.42  E-value=0.0087  Score=48.90  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998764

>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=95.42  E-value=0.0076  Score=47.13  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-++++|.+|+|||||++++...
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            35789999999999999998764

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=95.41  E-value=0.025  Score=50.87  Aligned_cols=63  Identities=13%  Similarity=0.273  Sum_probs=40.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHh------------------cCCCCC---CCCCCcceeeEEEEEEE---CCeEEEEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYV------------------GDEKEQ---GGSPGEGLNMMDKTLLV---RGARISYSIW  137 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~------------------~~~~~~---~~~~t~~~~~~~~~~~~---~~~~~~l~i~  137 (268)
                      ...=|.|+|..++|||+|+|.++                  ...|..   ....|.|+-.....+.+   ++..+.+.+.
T Consensus        66 ~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vlll  145 (457)
T 4ido_A           66 EVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLM  145 (457)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEEE
T ss_pred             ceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEEE
Confidence            34556699999999999999553                  123322   12235565443322222   5778899999


Q ss_pred             eCCCccc
Q 041042          138 EVTGDAK  144 (268)
Q Consensus       138 Dt~G~~~  144 (268)
                      ||.|...
T Consensus       146 DTEG~~d  152 (457)
T 4ido_A          146 DTQGTFD  152 (457)
T ss_dssp             EECCBTC
T ss_pred             eccCCCC
Confidence            9999543

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.40  E-value=0.0074  Score=47.89  Aligned_cols=22  Identities=27%  Similarity=0.228  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|+|.+|+||||+.+.|..
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.39  E-value=0.0084  Score=47.57  Aligned_cols=22  Identities=27%  Similarity=0.387  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -.|+++|.+|+||||+.+.+..
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3799999999999999998864

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.39  E-value=0.008  Score=49.49  Aligned_cols=22  Identities=32%  Similarity=0.440  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998764

>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=95.39  E-value=0.0084  Score=46.36  Aligned_cols=22  Identities=23%  Similarity=0.250  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .-|++.|.+|+||||+.+.|..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999865

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.38  E-value=0.0081  Score=47.40  Aligned_cols=21  Identities=24%  Similarity=0.439  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+|.|.+|+||||+.+.+..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            689999999999999998865

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.38  E-value=0.0082  Score=49.75  Aligned_cols=22  Identities=27%  Similarity=0.504  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5789999999999999998664

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=95.37  E-value=0.0086  Score=49.62  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999874

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.36  E-value=0.0088  Score=50.08  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999874

>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=95.35  E-value=0.01  Score=45.76  Aligned_cols=22  Identities=18%  Similarity=0.184  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|+|.+|+||||+.+.+.+
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999998854

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.35  E-value=0.0085  Score=49.89  Aligned_cols=22  Identities=27%  Similarity=0.231  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998764

>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=95.34  E-value=0.0079  Score=47.71  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+|+|+|.+|+||||+.+.+.+
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999876

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.33  E-value=0.0094  Score=50.28  Aligned_cols=22  Identities=32%  Similarity=0.249  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5789999999999999988764

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.32  E-value=0.0093  Score=49.73  Aligned_cols=22  Identities=18%  Similarity=0.218  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            6889999999999999998764

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.31  E-value=0.011  Score=46.21  Aligned_cols=21  Identities=24%  Similarity=0.161  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+|.|.+|+||||+.+.+..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>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=95.29  E-value=0.01  Score=46.28  Aligned_cols=22  Identities=14%  Similarity=0.093  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|.|.+|+||||+.+.|..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998854

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=95.28  E-value=0.0088  Score=52.31  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-|++|+|.+|+|||||++.+.+-
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999998764

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.28  E-value=0.0097  Score=49.94  Aligned_cols=22  Identities=18%  Similarity=0.154  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999988764

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=95.28  E-value=0.009  Score=50.94  Aligned_cols=21  Identities=29%  Similarity=0.460  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHh
Q 041042           84 LKISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~  104 (268)
                      --++++|.+|||||||+|.+.
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            367899999999999999998

>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=95.26  E-value=0.012  Score=46.61  Aligned_cols=24  Identities=25%  Similarity=0.284  Sum_probs=20.8

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..+.|+|+|.+|+||||+.+.|..
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998854

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.26  E-value=0.0055  Score=47.80  Aligned_cols=22  Identities=23%  Similarity=0.456  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+.|+|.+|+|||||++.+.+-
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999998764

>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=95.23  E-value=0.0083  Score=48.28  Aligned_cols=22  Identities=18%  Similarity=0.217  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|++|+|||||++.+.+.
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999774

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.22  E-value=0.0091  Score=49.83  Aligned_cols=22  Identities=18%  Similarity=0.223  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      =.++|+|++|+|||||++.+.+
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHH
Confidence            3689999999999999999866

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.21  E-value=0.0095  Score=50.91  Aligned_cols=22  Identities=14%  Similarity=0.295  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      =.++|+|++|+|||||++.+.+
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhh
Confidence            3799999999999999998875

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.20  E-value=0.014  Score=45.48  Aligned_cols=23  Identities=17%  Similarity=0.216  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...|+++|.+|+||||+.+.|..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998863

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.20  E-value=0.0099  Score=49.37  Aligned_cols=22  Identities=27%  Similarity=0.528  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998764

>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=95.19  E-value=0.0095  Score=47.29  Aligned_cols=23  Identities=17%  Similarity=0.024  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-|+|+|.+|+|||||.+.+.+.
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999988653

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.18  E-value=0.01  Score=49.70  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5789999999999999998764

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.17  E-value=0.0068  Score=49.28  Aligned_cols=22  Identities=23%  Similarity=0.264  Sum_probs=14.9

Q ss_pred             EEEEEcCCCChHHHHHHHHh-cC
Q 041042           85 KISLLGDCHIGKTSFLEKYV-GD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~-~~  106 (268)
                      -++|+|.+|+|||||++.+. +.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            58899999999999999998 53

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.15  E-value=0.012  Score=49.28  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6889999999999999998764

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.14  E-value=0.0076  Score=48.55  Aligned_cols=22  Identities=23%  Similarity=0.084  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5889999999999999998764

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=95.13  E-value=0.01  Score=45.79  Aligned_cols=22  Identities=27%  Similarity=0.446  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+++.|++|+|||+|++.+...
T Consensus        45 ~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           45 NPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999988654

>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=95.10  E-value=0.011  Score=47.51  Aligned_cols=22  Identities=18%  Similarity=0.224  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+|.|+|.+|+||||+.+.+.+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.09  E-value=0.015  Score=46.10  Aligned_cols=22  Identities=23%  Similarity=0.098  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|.|.+|+||||+.+.|..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999865

>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=95.09  E-value=0.011  Score=47.32  Aligned_cols=22  Identities=27%  Similarity=0.320  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ++|+|.|.+|+||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998854

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.09  E-value=0.015  Score=45.43  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...|+|.|.+|+||||+.+.+..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999988754

>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=95.09  E-value=0.012  Score=47.21  Aligned_cols=22  Identities=18%  Similarity=0.280  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +.|+++|.||+||+|...++..
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>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=95.08  E-value=0.015  Score=46.26  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +.|.|+|.+|+||||+.+.+.+
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999976

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.05  E-value=0.04  Score=47.45  Aligned_cols=20  Identities=20%  Similarity=0.203  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++.|++|+||||+++.+.+
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998866

>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=95.04  E-value=0.015  Score=45.46  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|++.|.+|+||||+.+.+..
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.02  E-value=0.014  Score=45.51  Aligned_cols=22  Identities=32%  Similarity=0.286  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+++|.+|+||||+.+.+..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998854

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=95.01  E-value=0.01  Score=50.77  Aligned_cols=21  Identities=24%  Similarity=0.458  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .++|+|.+|+|||||++.+.+
T Consensus        82 ~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTT
T ss_pred             EEEEECCCCchHHHHHHHHHc
Confidence            688999999999999998865

>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=94.93  E-value=0.012  Score=50.48  Aligned_cols=23  Identities=17%  Similarity=0.316  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..-|.|+|.+|+|||||++.+.+
T Consensus        90 g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           90 PFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCchHHHHHHHHHh
Confidence            46889999999999999998866

>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=94.91  E-value=0.016  Score=45.27  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ...|+|+|.+|+||||+.+.|...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            357999999999999999988653

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=94.90  E-value=0.013  Score=51.24  Aligned_cols=23  Identities=30%  Similarity=0.444  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      -++|+|++|+|||||++.+.+-.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999987743

>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=94.89  E-value=0.016  Score=50.77  Aligned_cols=24  Identities=38%  Similarity=0.564  Sum_probs=20.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHH
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKY  103 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l  103 (268)
                      .....||+|+|.+|+|||||++++
T Consensus        30 ~~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           30 SARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             hcCccEEEEECCCCCcHHHHHHHH
Confidence            344699999999999999999886

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=94.88  E-value=0.014  Score=49.54  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|+.|+|||||++.+.+-
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5789999999999999998764

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=94.88  E-value=0.015  Score=44.38  Aligned_cols=21  Identities=24%  Similarity=0.229  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +|+|.|.+|+||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998865

>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=94.86  E-value=0.016  Score=46.60  Aligned_cols=22  Identities=18%  Similarity=0.286  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|+|.+|+||||+.+.|..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998854

>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=94.86  E-value=0.021  Score=45.36  Aligned_cols=24  Identities=21%  Similarity=0.315  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ...|+|+|.+|+|||||.+.+.+.
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999998764

>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=94.85  E-value=0.018  Score=47.31  Aligned_cols=23  Identities=17%  Similarity=0.034  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .++|+|+|.+|+||||+.++|..
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=94.84  E-value=0.015  Score=50.84  Aligned_cols=22  Identities=36%  Similarity=0.486  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|++|+|||||++.+.+-
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999998774

>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=94.80  E-value=0.014  Score=48.04  Aligned_cols=21  Identities=29%  Similarity=0.517  Sum_probs=19.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ++++|++|+|||+|++.+.+.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999998764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=94.78  E-value=0.0093  Score=45.28  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++++|++|+|||+|++.+.+.
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999998764

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=94.75  E-value=0.016  Score=50.72  Aligned_cols=22  Identities=36%  Similarity=0.406  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++++|++|+|||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHCC
Confidence            4789999999999999998774

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=94.75  E-value=0.016  Score=50.72  Aligned_cols=22  Identities=32%  Similarity=0.448  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++++|++|+|||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            4789999999999999998774

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.75  E-value=0.022  Score=45.18  Aligned_cols=23  Identities=22%  Similarity=0.079  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...|+|.|.+|+||||+.+.|..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            36799999999999999998864

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=94.72  E-value=0.017  Score=50.96  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      -++++|++|+|||||++.+.+-.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            47899999999999999987743

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

Probab=94.71  E-value=0.015  Score=48.88  Aligned_cols=21  Identities=24%  Similarity=0.287  Sum_probs=19.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ++++|++|+|||+|++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999998763

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.71  E-value=0.016  Score=44.84  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +|+|+|.+|+||||+.+.+..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            589999999999999998854

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.67  E-value=0.017  Score=46.68  Aligned_cols=22  Identities=18%  Similarity=0.301  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|+|.+|+||||+.+.|..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998863

>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=94.67  E-value=0.018  Score=44.63  Aligned_cols=22  Identities=27%  Similarity=0.344  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+++|.+|+||||+.+.+..
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHH
Confidence            4689999999999999998863

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.67  E-value=0.018  Score=46.35  Aligned_cols=23  Identities=22%  Similarity=0.135  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+.|+|+|.+|+||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998854

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=94.66  E-value=0.017  Score=50.77  Aligned_cols=22  Identities=36%  Similarity=0.387  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|++|+|||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCcHHHHHHHHHHcC
Confidence            4789999999999999998774

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=94.65  E-value=0.018  Score=50.67  Aligned_cols=22  Identities=36%  Similarity=0.404  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++++|++|+|||||++.+.+-
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4789999999999999998774

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=94.64  E-value=0.029  Score=44.35  Aligned_cols=22  Identities=36%  Similarity=0.301  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|.|.+|+||||+.+.|..
T Consensus        16 ~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           16 SVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988864

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.63  E-value=0.019  Score=46.42  Aligned_cols=21  Identities=19%  Similarity=0.124  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+|.|.+|+||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=94.62  E-value=0.018  Score=50.41  Aligned_cols=22  Identities=14%  Similarity=0.152  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+.|+|++|+|||||++.+.+-
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHhcC
Confidence            4679999999999999988764

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=94.61  E-value=0.015  Score=50.70  Aligned_cols=22  Identities=41%  Similarity=0.487  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++++|++|+|||||++.+.+-
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCccHHHHHHHHHcC
Confidence            5789999999999999998774

>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=94.60  E-value=0.02  Score=44.48  Aligned_cols=21  Identities=38%  Similarity=0.618  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -+.++|.+|+|||||+.++..
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999875

>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=94.57  E-value=0.021  Score=45.04  Aligned_cols=23  Identities=22%  Similarity=0.092  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..|+|.|.+|+||||+.+.|...
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHT
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHH
Confidence            57999999999999999998654

>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=94.56  E-value=0.017  Score=49.38  Aligned_cols=90  Identities=9%  Similarity=0.117  Sum_probs=48.5

Q ss_pred             EEEEeCCCcccccc-----c-------hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCC
Q 041042          134 YSIWEVTGDAKAQD-----H-------LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFI  201 (268)
Q Consensus       134 l~i~Dt~G~~~~~~-----~-------~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~  201 (268)
                      +.+.||+|......     +       .+......+.++++.|.+.....   ...+..+.+.  ...-+|+.||.|.. 
T Consensus       187 ~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~~~---~~~~~~~~~~--~~~t~iivTh~d~~-  260 (304)
T 1rj9_A          187 LLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNG---LEQAKKFHEA--VGLTGVIVTKLDGT-  260 (304)
T ss_dssp             EEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHH---HHHHHHHHHH--HCCSEEEEECTTSS-
T ss_pred             EEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHHHH---HHHHHHHHHH--cCCcEEEEECCccc-
Confidence            56889999532211     1       11223456778889997655432   2222222221  12457899999841 


Q ss_pred             CCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                           ..   -..+.......+.+...+.  +|+++++
T Consensus       261 -----a~---gg~~l~i~~~~~~pi~~ig--~Ge~~~d  288 (304)
T 1rj9_A          261 -----AK---GGVLIPIVRTLKVPIKFVG--VGEGPDD  288 (304)
T ss_dssp             -----CC---CTTHHHHHHHHCCCEEEEE--CSSSTTC
T ss_pred             -----cc---ccHHHHHHHHHCCCeEEEe--CCCChhh
Confidence                 11   1223456677888877765  4444443

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.54  E-value=0.018  Score=46.30  Aligned_cols=22  Identities=32%  Similarity=0.472  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|++|+|||||++.+.+.
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999998753

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.53  E-value=0.025  Score=44.15  Aligned_cols=23  Identities=22%  Similarity=0.245  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..-|+++|.+|+||||+.+.+..
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            46799999999999999998854

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.53  E-value=0.022  Score=46.78  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...|.|+|..|+|||||++.+.+
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998865

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.44  E-value=0.023  Score=44.34  Aligned_cols=21  Identities=29%  Similarity=0.178  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|++.|.+|+||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=94.43  E-value=0.023  Score=47.97  Aligned_cols=22  Identities=27%  Similarity=0.164  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .-|+|.|.+|+||||+.+++..
T Consensus        34 ~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           34 TAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999864

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=94.42  E-value=0.016  Score=44.63  Aligned_cols=23  Identities=35%  Similarity=0.379  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.+++.|++|+|||+|++.+...
T Consensus        44 ~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           44 NNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            35799999999999999988653

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.41  E-value=0.019  Score=48.94  Aligned_cols=22  Identities=32%  Similarity=0.250  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      --++++|.+|+||||+++.+.+
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4788999999999999998864

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.39  E-value=0.026  Score=45.67  Aligned_cols=24  Identities=33%  Similarity=0.328  Sum_probs=19.0

Q ss_pred             eeEEE-EEEcCCCChHHHHHHHHhc
Q 041042           82 VALKI-SLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        82 ~~~ki-~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...|| +|+|.||+||+|...++..
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            34454 5789999999999988864

>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=94.39  E-value=0.026  Score=47.76  Aligned_cols=23  Identities=22%  Similarity=0.060  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...|.|.|.+|+|||||++.+..
T Consensus        31 ~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           31 PLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999987643

>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=94.38  E-value=0.03  Score=43.53  Aligned_cols=22  Identities=23%  Similarity=0.160  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|.|.+|+||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998854

>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=94.38  E-value=0.0098  Score=47.41  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -|+|.|.+|+||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            488999999999999999864

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=94.37  E-value=0.17  Score=41.16  Aligned_cols=24  Identities=29%  Similarity=0.234  Sum_probs=20.4

Q ss_pred             eEEEEEE--cCCCChHHHHHHHHhcC
Q 041042           83 ALKISLL--GDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vl--G~~~vGKSsLi~~l~~~  106 (268)
                      +-||+|+  |.+++|||.|++++.+.
T Consensus        27 ~nkilvl~~~~~~~~~~~~~~~lf~~   52 (233)
T 3uc9_A           27 QNKILVLSDHPHNFLKTQFLQDLFHC   52 (233)
T ss_dssp             CCEEEEEEEGGGHHHHHHHHHHHHCC
T ss_pred             CCceEEEecCcccccHHHHHHHHhcc
Confidence            4577777  89999999999999876

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.35  E-value=0.016  Score=44.96  Aligned_cols=22  Identities=23%  Similarity=0.143  Sum_probs=15.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|.|.+|+||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999854

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

Probab=94.35  E-value=0.02  Score=47.83  Aligned_cols=21  Identities=29%  Similarity=0.517  Sum_probs=19.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ++++|++|+|||+|++.+.+.
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            899999999999999998764

>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=94.34  E-value=0.019  Score=50.09  Aligned_cols=21  Identities=19%  Similarity=0.279  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .++|+|++|+|||||++.+.+
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            799999999999999998865

>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=94.32  E-value=0.021  Score=45.99  Aligned_cols=23  Identities=22%  Similarity=0.328  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.+++.|++|+|||+|++.+...
T Consensus        53 ~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           53 QAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999988653

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=94.32  E-value=0.028  Score=44.64  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...|.|+|.+|+|||||++.+.+
T Consensus        22 ~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           22 RLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999998864

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=94.31  E-value=0.021  Score=47.23  Aligned_cols=21  Identities=19%  Similarity=0.147  Sum_probs=18.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -|+|+|.+|+|||||.+.+..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999998854

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=94.29  E-value=0.023  Score=44.41  Aligned_cols=22  Identities=32%  Similarity=0.224  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|+|.+|+||||+.+.|..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998854

>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=94.29  E-value=0.029  Score=44.11  Aligned_cols=24  Identities=17%  Similarity=0.199  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ...|+|.|.+|+||||+.+.|...
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC
Confidence            468999999999999999998764

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=94.27  E-value=0.022  Score=50.36  Aligned_cols=22  Identities=27%  Similarity=0.566  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|++|+|||||++.+.+-
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5789999999999999998763

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=94.25  E-value=0.015  Score=50.76  Aligned_cols=22  Identities=32%  Similarity=0.585  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++++|++|+|||||++.+.+-
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5789999999999999998774

>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=94.24  E-value=0.026  Score=44.87  Aligned_cols=22  Identities=32%  Similarity=0.237  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|.|.+|+||||+.+.|..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999864

>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=94.24  E-value=0.025  Score=43.29  Aligned_cols=21  Identities=19%  Similarity=0.199  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+|.|.+|+||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998854

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.24  E-value=0.022  Score=49.81  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.++|+|.+|+|||||++.+.+-
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            37999999999999999999774

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=94.23  E-value=0.021  Score=49.19  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++++|++|+|||||++.+.+.
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999998764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.22  E-value=0.024  Score=45.65  Aligned_cols=22  Identities=27%  Similarity=0.218  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|+|.+|+||||+.+.+..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998854

>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=94.20  E-value=0.026  Score=46.87  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .-|+++|.+|+||||+.+.+..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=94.19  E-value=0.022  Score=49.21  Aligned_cols=22  Identities=18%  Similarity=0.365  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|.+|+|||||++.+.+-
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~  194 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEF  194 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999998764

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.18  E-value=0.028  Score=44.09  Aligned_cols=22  Identities=32%  Similarity=0.282  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|.|.+|+||||+.+.|..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988854

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=94.15  E-value=0.024  Score=44.73  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      --+++.|++|+|||+|++.+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988654

>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=94.13  E-value=0.022  Score=48.06  Aligned_cols=22  Identities=18%  Similarity=0.327  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|.+|+|||||++.+.+.
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            5889999999999999998764

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=94.11  E-value=0.027  Score=43.65  Aligned_cols=21  Identities=14%  Similarity=0.162  Sum_probs=18.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -.+|+|+.|+|||||+..+..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999754

>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=94.10  E-value=0.03  Score=47.77  Aligned_cols=23  Identities=22%  Similarity=0.327  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...|.|+|.+|+|||||++.+.+
T Consensus        80 g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           80 PYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999998866

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

Probab=94.08  E-value=0.025  Score=46.58  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++++|++|+|||+|++.+.+.
T Consensus        47 ~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            4999999999999999998653

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.06  E-value=0.032  Score=46.05  Aligned_cols=21  Identities=19%  Similarity=0.235  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHh
Q 041042           84 LKISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~  104 (268)
                      ..|+|+|.+|+||||+++.+.
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999987

>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=94.05  E-value=0.032  Score=45.34  Aligned_cols=22  Identities=27%  Similarity=0.295  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+++|.+|+||||+.+.|..
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998854

>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=94.05  E-value=0.026  Score=44.98  Aligned_cols=21  Identities=19%  Similarity=0.094  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -++++|.+|+|||||+..+..
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999987

>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=94.03  E-value=0.024  Score=49.78  Aligned_cols=22  Identities=18%  Similarity=0.223  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      =.++|+|.+|+|||||++.+.+
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3689999999999999999876

>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=94.02  E-value=0.029  Score=43.57  Aligned_cols=21  Identities=24%  Similarity=0.240  Sum_probs=18.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+|+|.+|+||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988754

>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=94.01  E-value=0.034  Score=43.00  Aligned_cols=22  Identities=23%  Similarity=0.128  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+++|.+|+||||+.+.+..
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999998865

>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=93.99  E-value=0.027  Score=45.61  Aligned_cols=22  Identities=18%  Similarity=0.306  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|++|+|||||+..+...
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            5889999999999999999874

>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=93.98  E-value=0.027  Score=45.06  Aligned_cols=21  Identities=24%  Similarity=0.230  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -++|.|++|+|||+|++.+..
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~   67 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAK   67 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998865

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=93.97  E-value=0.037  Score=47.60  Aligned_cols=23  Identities=17%  Similarity=0.286  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+-|.|+|.+|+|||||++.+.+
T Consensus        92 p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           92 PYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            47799999999999999988754

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=93.96  E-value=0.027  Score=48.98  Aligned_cols=23  Identities=17%  Similarity=0.446  Sum_probs=21.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      ++.|+|.+|+|||||++.+.+..
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            78999999999999999998763

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=93.93  E-value=0.026  Score=46.63  Aligned_cols=22  Identities=27%  Similarity=0.241  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+++|.+|+||||+.+.+..
T Consensus        33 ~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           33 IAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             EEEEEESCGGGTTHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998854

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=93.90  E-value=0.032  Score=45.32  Aligned_cols=24  Identities=21%  Similarity=0.440  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..-|+|.|..|+|||||++.+.+.
T Consensus        20 g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           20 PFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            467999999999999999988764

>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=93.79  E-value=0.039  Score=45.41  Aligned_cols=24  Identities=29%  Similarity=0.321  Sum_probs=20.9

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..+.|.|.|.+|+||||+.+.|..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998855

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=93.79  E-value=0.035  Score=41.54  Aligned_cols=23  Identities=13%  Similarity=0.031  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..|++.|++|+|||++.+.+...
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHh
Confidence            35899999999999999988664

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.77  E-value=0.03  Score=48.93  Aligned_cols=22  Identities=32%  Similarity=0.250  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      --++++|.+|+||||+++.+.+
T Consensus       158 ~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          158 AVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHh
Confidence            4788999999999999998864

>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=93.73  E-value=0.03  Score=50.93  Aligned_cols=91  Identities=10%  Similarity=0.125  Sum_probs=49.2

Q ss_pred             EEEEEeCCCcccccc-c---hhhh---h-----cCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          133 SYSIWEVTGDAKAQD-H---LPVA---C-----KDSIAILFMFDLTSR-CTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~-~---~~~~---~-----~~a~~vilv~D~~~~-~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      .+.+.||+|...... +   ....   .     ...+-++||.|.+.. +.++.    ...+...  -.+..+|.||.|-
T Consensus       377 DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattGq~al~~----ak~f~~~--~~itgvIlTKLD~  450 (503)
T 2yhs_A          377 DVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQ----AKLFHEA--VGLTGITLTKLDG  450 (503)
T ss_dssp             SEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGTHHHHHH----HHHHHHH--TCCSEEEEECGGG
T ss_pred             CEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcccHHHHHH----HHHHHhh--cCCCEEEEEcCCC
Confidence            467899999643211 1   0111   1     125678899997643 22322    2222221  1234689999993


Q ss_pred             CCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                            .   ..-..+..++..++.++.++  -+|++++++
T Consensus       451 ------t---akgG~~lsi~~~~~~PI~fi--g~Ge~vdDL  480 (503)
T 2yhs_A          451 ------T---AKGGVIFSVADQFGIPIRYI--GVGERIEDL  480 (503)
T ss_dssp             ------C---SCCTHHHHHHHHHCCCEEEE--ECSSSGGGE
T ss_pred             ------c---ccccHHHHHHHHHCCCEEEE--ecCCChhhc
Confidence                  1   11234556677788887774  355666554

>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=93.69  E-value=0.043  Score=43.89  Aligned_cols=22  Identities=18%  Similarity=0.376  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +.|+|.|.+|+||||+.+.|..
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999999865

>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=93.68  E-value=0.033  Score=44.44  Aligned_cols=22  Identities=27%  Similarity=0.262  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .-|+++|.+|+||||+.+.+..
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999998754

>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=93.58  E-value=0.033  Score=49.74  Aligned_cols=22  Identities=23%  Similarity=0.206  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|.+|+|||||++.+.+.
T Consensus       169 ii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999998764

>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=93.57  E-value=0.036  Score=45.15  Aligned_cols=24  Identities=21%  Similarity=0.223  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..-|++.|.+|+||||+++.+...
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            467999999999999999988653

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=93.55  E-value=0.031  Score=50.52  Aligned_cols=22  Identities=23%  Similarity=0.445  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|..|+|||||++.+.+-
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            7999999999999999998763

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=93.54  E-value=0.024  Score=48.61  Aligned_cols=22  Identities=27%  Similarity=0.330  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|+|..|+|||||++.+.+.
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEEecCCCCHHHHHHHHHhh
Confidence            3679999999999999999865

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=93.49  E-value=0.043  Score=41.94  Aligned_cols=21  Identities=24%  Similarity=0.267  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+|.|.+|+||||+.+.|..
T Consensus         9 ~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            9 HLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999998854

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

Probab=93.45  E-value=0.036  Score=46.21  Aligned_cols=22  Identities=27%  Similarity=0.274  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+++.|++|+|||+|++.+...
T Consensus        53 ~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           53 GILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5999999999999999998654

>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=93.43  E-value=0.039  Score=45.28  Aligned_cols=21  Identities=29%  Similarity=0.224  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -+++.|++|+|||+|++.+..
T Consensus        41 ~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           41 GALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999865

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=93.40  E-value=0.037  Score=50.70  Aligned_cols=22  Identities=23%  Similarity=0.249  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|.+|+|||||++.+.+-
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~  283 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMF  283 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4999999999999999998764

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=93.40  E-value=0.038  Score=49.63  Aligned_cols=23  Identities=17%  Similarity=0.351  Sum_probs=20.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      ++.|+|.+|+|||||++.+.+..
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            78999999999999999987753

>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=93.36  E-value=0.05  Score=48.23  Aligned_cols=24  Identities=21%  Similarity=0.385  Sum_probs=21.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHH
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKY  103 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l  103 (268)
                      ....+|++++|...+||||+++++
T Consensus        37 ~~~~~klLLLG~geSGKSTi~KQm   60 (402)
T 1azs_C           37 YRATHRLLLLGAGESGKSTIVKQM   60 (402)
T ss_dssp             CTTEEEEEEEESTTSSHHHHHHHH
T ss_pred             hhccceEEEecCCCCchhhHHHHH
Confidence            456799999999999999999986

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=93.36  E-value=0.04  Score=45.62  Aligned_cols=22  Identities=23%  Similarity=0.173  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -.|+|+|.+|+||||+.+.+.+
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998854

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

Probab=93.33  E-value=0.039  Score=46.39  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      --+++.|++|+|||+|++.+.+.
T Consensus        55 ~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           55 KGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            36899999999999999998763

>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=93.27  E-value=0.049  Score=44.59  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+.|+|.|.+|+||||+.+.+..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998853

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=93.21  E-value=0.05  Score=50.20  Aligned_cols=23  Identities=17%  Similarity=0.440  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      =.++++|..|+|||||++.+.+-
T Consensus        48 e~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           48 MVVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            37899999999999999999875

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=93.21  E-value=0.67  Score=37.24  Aligned_cols=86  Identities=9%  Similarity=0.022  Sum_probs=58.4

Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceE-EEEeCCCCCCCCCccchhc
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFIQLPIDLQWT  210 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~i-lvgnK~Dl~~~~~~~~~~~  210 (268)
                      +.+.++|+++.-.  ......+..+|.+|++...+ ..++..+...++.+...+.....+ +|.|+.|-.       ...
T Consensus       119 yD~viiD~p~~~~--~~~~~~l~~ad~viiv~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~-------~~~  188 (245)
T 3ea0_A          119 YDYIIVDFGASID--HVGVWVLEHLDELCIVTTPS-LQSLRRAGQLLKLCKEFEKPISRIEIILNRADTN-------SRI  188 (245)
T ss_dssp             CSEEEEEEESSCC--TTHHHHGGGCSEEEEEECSS-HHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSC-------TTS
T ss_pred             CCEEEEeCCCCCc--hHHHHHHHHCCEEEEEecCc-HHHHHHHHHHHHHHHHhCCCccceEEEEecCCCC-------CCC
Confidence            5578999987542  34455677899999999864 777888888888887765444444 999999941       111


Q ss_pred             hHHHHHHHHHHhCCeEEEEc
Q 041042          211 IASQARAYAKALNATLFFSS  230 (268)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~S  230 (268)
                      ..   +.+.+.++.+++.+-
T Consensus       189 ~~---~~~~~~~~~~v~~~i  205 (245)
T 3ea0_A          189 TS---DEIEKVIGRPISKRI  205 (245)
T ss_dssp             CH---HHHHHHHTSCEEEEE
T ss_pred             CH---HHHHHHhCCCeEEEC
Confidence            12   344556787776643

>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=93.20  E-value=0.048  Score=45.93  Aligned_cols=22  Identities=18%  Similarity=0.332  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .-|+++|.+|+||||+.+++..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999875

>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=93.17  E-value=0.18  Score=39.56  Aligned_cols=84  Identities=10%  Similarity=-0.010  Sum_probs=53.5

Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhC---CCCceEEEEeCCCCCCCCCccch
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN---QTAIPIIIGTKFDDFIQLPIDLQ  208 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~---~~~~~ilvgnK~Dl~~~~~~~~~  208 (268)
                      +.+.++|+++..  .......+..+|.+|++...+...  ..+...++.+....   +..+..+|.|+.|.       ..
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~-------~~  144 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSAAGSVVTVLEAQAYSRKVEARFLITRKIE-------MA  144 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHHHHHHHHHHTTSCGGGCCEEEEEECSBCT-------TE
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHHHHHHHHHHHHHHhCCCCcEEEEEeccCC-------Cc
Confidence            567899999865  334455667799999999876444  66677677766543   22233599999993       11


Q ss_pred             hchHHHHHHHHHHhCCeEE
Q 041042          209 WTIASQARAYAKALNATLF  227 (268)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~  227 (268)
                      . ...+..++.+.++.+++
T Consensus       145 ~-~~~~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          145 T-MLNVLKESIKDTGVKAF  162 (206)
T ss_dssp             E-EEHHHHHHHHHHTCCBC
T ss_pred             h-HHHHHHHHHHHcCCcee
Confidence            1 22344555556666554

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=93.11  E-value=0.043  Score=46.80  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+++.|++|+|||+|++.+.+.
T Consensus        39 ~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5889999999999999988653

>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=93.10  E-value=0.042  Score=47.55  Aligned_cols=22  Identities=23%  Similarity=0.300  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|.|.+|+|||+|++.+.+.
T Consensus        47 ~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           47 NIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999998763

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=93.06  E-value=0.058  Score=40.73  Aligned_cols=19  Identities=26%  Similarity=0.459  Sum_probs=17.0

Q ss_pred             EEEEcCCCChHHHHHHHHh
Q 041042           86 ISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~  104 (268)
                      .+|+|+.|+|||||+..+.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5799999999999999864

>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=93.03  E-value=0.044  Score=45.80  Aligned_cols=21  Identities=14%  Similarity=0.101  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -++|+|.+|+|||||+..+..
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            588999999999999999875

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

Probab=93.02  E-value=0.045  Score=46.28  Aligned_cols=23  Identities=22%  Similarity=0.179  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-+++.|+||+|||+|++.+...
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35777899999999999988653

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=93.01  E-value=0.049  Score=50.71  Aligned_cols=22  Identities=18%  Similarity=0.271  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++++|++|+|||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhc
Confidence            6889999999999999988663

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=92.95  E-value=0.053  Score=43.91  Aligned_cols=21  Identities=29%  Similarity=0.387  Sum_probs=18.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -++|+|++|+|||+|+.++..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999887754

>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=92.91  E-value=0.049  Score=46.15  Aligned_cols=22  Identities=18%  Similarity=0.252  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|++.|++|+|||+|++.+.+.
T Consensus        51 ~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           51 GVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCcCHHHHHHHHHHH
Confidence            5899999999999999998764

>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=92.90  E-value=0.062  Score=45.11  Aligned_cols=22  Identities=23%  Similarity=0.271  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~  104 (268)
                      .+.|+|.|.+|+||||+.+.|.
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4789999999999999999986

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=92.90  E-value=0.056  Score=50.31  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++++|++|+|||||++.+.+-
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6889999999999999998764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=92.89  E-value=0.057  Score=43.90  Aligned_cols=26  Identities=15%  Similarity=0.312  Sum_probs=21.4

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ......|+|+|.+|+||||+.+.+..
T Consensus        13 ~~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           13 KMKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             -CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            44456899999999999999998864

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=92.82  E-value=0.049  Score=45.91  Aligned_cols=22  Identities=36%  Similarity=0.505  Sum_probs=19.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..+++.|++|+|||+|++.+..
T Consensus        68 ~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           68 LHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999986644

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=92.78  E-value=0.054  Score=45.50  Aligned_cols=21  Identities=24%  Similarity=0.474  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+++.|++|+|||+|++.+..
T Consensus        52 ~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           52 NILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=92.78  E-value=0.052  Score=49.29  Aligned_cols=21  Identities=24%  Similarity=0.374  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -++|+|++|+|||||++.+.+
T Consensus        31 ~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHhc
Confidence            578999999999999998865

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=92.74  E-value=0.054  Score=46.19  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|.|.+|+|||+|++.+...
T Consensus        33 ~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           33 LTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcCCHHHHHHHHHHH
Confidence            5889999999999999998754

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=92.73  E-value=0.053  Score=47.67  Aligned_cols=22  Identities=18%  Similarity=0.158  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      --++++|.+|+|||||++.+.+
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3789999999999999998875

>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=92.70  E-value=0.08  Score=41.87  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=21.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..+.|.|.|.+|+||||+.+.|..
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998865

>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=92.66  E-value=0.056  Score=46.95  Aligned_cols=22  Identities=36%  Similarity=0.333  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|.|++|+|||+|++.+.+.
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998764

>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=92.61  E-value=0.059  Score=44.74  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-.+++.|++|+|||+|++.+...
T Consensus        64 ~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           64 LVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            357999999999999999998664

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=92.55  E-value=0.061  Score=49.60  Aligned_cols=22  Identities=32%  Similarity=0.611  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+.++|+.|+|||||++.+.+-
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5789999999999999998774

>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=92.51  E-value=0.07  Score=42.59  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ...|+|+|.+|+|||+|...|...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            357999999999999999999765

>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=92.49  E-value=0.056  Score=46.17  Aligned_cols=22  Identities=23%  Similarity=0.305  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|.|.+|+|||+|++.+...
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~~   53 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGINE   53 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHh
Confidence            6889999999999999998653

>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=92.39  E-value=0.06  Score=45.66  Aligned_cols=90  Identities=12%  Similarity=0.061  Sum_probs=49.2

Q ss_pred             EEEEEEeCCCcccccc--ch--hhhhc--CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCc
Q 041042          132 ISYSIWEVTGDAKAQD--HL--PVACK--DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPI  205 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~--~~--~~~~~--~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~  205 (268)
                      ..+.|.||+|......  +.  ...+.  ..+.+++|+|.+..  .+.+..+.+.+.   .-..--+|.||.|..     
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~---~l~~~giVltk~D~~-----  252 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFS---SVPVNQYIFTKIDET-----  252 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTS---SSCCCEEEEECTTTC-----
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHh---cCCCCEEEEeCCCcc-----
Confidence            4588999999654321  11  11222  36788899987632  334444433321   111223778999941     


Q ss_pred             cchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          206 DLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                        .  ....+...+...++++..++  +|+++
T Consensus       253 --~--~~g~~~~~~~~~~~pi~~i~--~ge~v  278 (296)
T 2px0_A          253 --T--SLGSVFNILAESKIGVGFMT--NGQNV  278 (296)
T ss_dssp             --S--CCHHHHHHHHTCSCCCSEEC--CSSCT
T ss_pred             --c--chhHHHHHHHHHCcCEEEEE--CCCCC
Confidence              1  12355667778888876654  34444

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=92.39  E-value=0.75  Score=36.43  Aligned_cols=85  Identities=11%  Similarity=0.049  Sum_probs=54.4

Q ss_pred             EEEEEEeCCCc-cccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhc
Q 041042          132 ISYSIWEVTGD-AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWT  210 (268)
Q Consensus       132 ~~l~i~Dt~G~-~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~  210 (268)
                      +.+.++|+++. ..  ......+..+|.+|++...+ ..++..+...++.+.... +.+..+|.|+.|-       ....
T Consensus        68 yD~viiD~p~~~~~--~~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~-~~~~~vv~N~~~~-------~~~~  136 (209)
T 3cwq_A           68 YQNIVIDTQARPED--EDLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG-NNRFRILLTIIPP-------YPSK  136 (209)
T ss_dssp             CSEEEEEEECCCSS--SHHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC-SSSEEEEECSBCC-------TTSC
T ss_pred             CCEEEEeCCCCcCc--HHHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc-CCCEEEEEEecCC-------ccch
Confidence            55789999886 33  34455677899999999864 567777777777776643 2334599999994       1101


Q ss_pred             hHHHHHHHHHHhCCeEE
Q 041042          211 IASQARAYAKALNATLF  227 (268)
Q Consensus       211 ~~~~~~~~~~~~~~~~~  227 (268)
                      ...+..+..++++.+++
T Consensus       137 ~~~~~~~~l~~~g~~v~  153 (209)
T 3cwq_A          137 DGDEARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHHHHHTTCCBC
T ss_pred             HHHHHHHHHHHcCCchh
Confidence            23344455555665544

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=92.37  E-value=0.07  Score=49.95  Aligned_cols=22  Identities=32%  Similarity=0.539  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+.|+|+.|+|||||++.+.+-
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            6899999999999999998874

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=92.32  E-value=0.23  Score=42.12  Aligned_cols=21  Identities=24%  Similarity=0.137  Sum_probs=16.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++-|++|+|||++++.+...
T Consensus        51 ~L~~G~~G~GKT~la~~la~~   71 (324)
T 3u61_B           51 ILHSPSPGTGKTTVAKALCHD   71 (324)
T ss_dssp             EEECSSTTSSHHHHHHHHHHH
T ss_pred             EEeeCcCCCCHHHHHHHHHHH
Confidence            445566999999999998653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=92.26  E-value=0.068  Score=45.04  Aligned_cols=23  Identities=22%  Similarity=0.333  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      --+++.|++|+|||++++.+...
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHHH
Confidence            46899999999999999988653

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=92.18  E-value=0.058  Score=44.61  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ...|+|.|..|+||||+++.|..
T Consensus        24 ~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           24 IKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999988754

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=92.18  E-value=0.054  Score=43.47  Aligned_cols=21  Identities=19%  Similarity=0.373  Sum_probs=18.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+++.|+||+|||+++..+.+
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999887755

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=92.13  E-value=0.08  Score=49.57  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=20.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+.|+|..|+|||||++.+.+-
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQ  140 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            6899999999999999998774

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=92.10  E-value=0.08  Score=46.26  Aligned_cols=19  Identities=26%  Similarity=0.322  Sum_probs=17.2

Q ss_pred             EEEEcCCCChHHHHHHHHh
Q 041042           86 ISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~  104 (268)
                      .+|+|+.|+|||||++.+.
T Consensus        26 ~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5699999999999999875

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

Probab=92.08  E-value=0.071  Score=45.68  Aligned_cols=22  Identities=23%  Similarity=0.292  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|++.|++|+|||+|++.+...
T Consensus        47 ~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           47 GILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             EEEEESSSSSCHHHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHHH
Confidence            6899999999999999998764

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=92.07  E-value=0.087  Score=48.56  Aligned_cols=23  Identities=39%  Similarity=0.635  Sum_probs=20.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .+.|+|..|+|||||++.+.+-.
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998753

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=92.04  E-value=0.064  Score=46.44  Aligned_cols=23  Identities=22%  Similarity=0.146  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      --++|.|++|+|||+|++.+...
T Consensus        45 ~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           45 SNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999988653

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=92.00  E-value=0.059  Score=50.35  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++++|++|+|||||++.+.+-
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            7899999999999999988653

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=92.00  E-value=0.078  Score=48.87  Aligned_cols=22  Identities=45%  Similarity=0.703  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++|+|..|+|||||++.+.+-
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl  317 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGE  317 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998774

>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=92.00  E-value=0.078  Score=45.21  Aligned_cols=92  Identities=15%  Similarity=0.173  Sum_probs=50.3

Q ss_pred             EEEEEEeCCCcccccc-ch------hhh-----hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          132 ISYSIWEVTGDAKAQD-HL------PVA-----CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~-~~------~~~-----~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      ..+.+.||+|...... +.      ...     -...+.+++|.|.+..  .+.+.. ...+.+.  -.+.-+|.||.|-
T Consensus       187 ~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~--~~~l~~-a~~~~~~--~~i~gvVlTk~D~  261 (306)
T 1vma_A          187 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLVQ-AKIFKEA--VNVTGIILTKLDG  261 (306)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHHH-HHHHHHH--SCCCEEEEECGGG
T ss_pred             CCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCC--HHHHHH-HHHHHhc--CCCCEEEEeCCCC
Confidence            3478999999532211 10      011     1247889999998632  222221 2222221  2233488899993


Q ss_pred             CCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          200 FIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      .         ..-..+..+....+.|+.+++.  |+.+++
T Consensus       262 ~---------~~gG~~l~~~~~~~~Pi~~i~~--Ge~~~d  290 (306)
T 1vma_A          262 T---------AKGGITLAIARELGIPIKFIGV--GEKAED  290 (306)
T ss_dssp             C---------SCTTHHHHHHHHHCCCEEEEEC--SSSGGG
T ss_pred             c---------cchHHHHHHHHHHCCCEEEEeC--CCChhh
Confidence            1         1123367788888998877754  444444

>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=91.96  E-value=0.075  Score=45.70  Aligned_cols=21  Identities=24%  Similarity=0.289  Sum_probs=19.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++.|++|+||||+++.+.+.
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999998764

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=91.94  E-value=0.077  Score=45.50  Aligned_cols=21  Identities=24%  Similarity=0.267  Sum_probs=19.0

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++.|++|+|||++++.+.+.
T Consensus        61 ~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988654

>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=91.94  E-value=0.082  Score=41.60  Aligned_cols=21  Identities=19%  Similarity=0.314  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|.|.|.+|+||||+.+.+..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999998854

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=91.92  E-value=0.054  Score=50.39  Aligned_cols=21  Identities=14%  Similarity=0.300  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .++++|++|+|||||++.+.+
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g  389 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPR  389 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            688999999999999987755

>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=91.89  E-value=0.24  Score=43.99  Aligned_cols=22  Identities=18%  Similarity=0.256  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .-|+++|.+|+||||+.+++..
T Consensus       259 ~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          259 EVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999865

>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=91.88  E-value=0.077  Score=45.33  Aligned_cols=23  Identities=22%  Similarity=0.221  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.|++.|++|+|||+|++.+...
T Consensus        52 ~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           52 SGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            46999999999999999998653

>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=91.82  E-value=0.094  Score=43.25  Aligned_cols=23  Identities=13%  Similarity=0.137  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-|++.|++|+|||+|++.+...
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEECCCCCcHHHHHHHHHHh
Confidence            35899999999999999998764

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=91.80  E-value=0.066  Score=49.89  Aligned_cols=21  Identities=19%  Similarity=0.420  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++++|++|+|||||++.+.+
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g  391 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPR  391 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            688999999999999998765

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

Probab=91.77  E-value=0.039  Score=45.59  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++.|++|+|||+|++.+...
T Consensus        47 vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           47 VLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CCCBCSSCSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999998653

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=91.77  E-value=0.098  Score=48.96  Aligned_cols=23  Identities=39%  Similarity=0.635  Sum_probs=20.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .++|+|..|+|||||++.+.+-.
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998753

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=91.74  E-value=0.078  Score=45.87  Aligned_cols=23  Identities=17%  Similarity=0.163  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      --+++.|++|+|||+|++.+...
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999998653

>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=91.73  E-value=0.079  Score=46.03  Aligned_cols=23  Identities=17%  Similarity=0.190  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      --+.|+|++|+|||||++.+...
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            36789999999999999999775

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=91.72  E-value=0.089  Score=45.00  Aligned_cols=22  Identities=23%  Similarity=0.314  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .|++.|++|+|||+|++.+...
T Consensus        57 ~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           57 HILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            5899999999999999998553

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=91.66  E-value=0.13  Score=41.81  Aligned_cols=21  Identities=29%  Similarity=0.203  Sum_probs=18.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHH
Q 041042           83 ALKISLLGDCHIGKTSFLEKY  103 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l  103 (268)
                      .+||++.|.+|||||++.-.+
T Consensus         6 ~l~I~~~~kgGvGKTt~a~~l   26 (228)
T 2r8r_A            6 RLKVFLGAAPGVGKTYAMLQA   26 (228)
T ss_dssp             CEEEEEESSTTSSHHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHH
Confidence            589999999999999996554

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=91.60  E-value=0.089  Score=44.81  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -.+++.|++|+|||+|+..+..
T Consensus       153 ~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          153 KGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988765

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.56  E-value=0.093  Score=46.90  Aligned_cols=22  Identities=23%  Similarity=0.306  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|++.|+||+|||+|++.+.+.
T Consensus       208 GiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          208 GVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             EEEEESCTTTTHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999998753

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=91.54  E-value=0.11  Score=44.88  Aligned_cols=22  Identities=18%  Similarity=0.306  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|+|+|++|||||+|...|...
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999998753

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=91.54  E-value=0.1  Score=44.79  Aligned_cols=22  Identities=27%  Similarity=0.312  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|+|+|.+|+|||||...+..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998864

>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=91.53  E-value=0.086  Score=45.76  Aligned_cols=22  Identities=23%  Similarity=0.160  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++|.|++|+|||+|++.+...
T Consensus        47 ~vll~G~~G~GKT~la~~l~~~   68 (384)
T 2qby_B           47 SNLFLGLTGTGKTFVSKYIFNE   68 (384)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999988653

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=91.47  E-value=0.077  Score=45.35  Aligned_cols=21  Identities=24%  Similarity=0.142  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+++.|++|+|||+|++.+..
T Consensus        48 ~vll~G~pGtGKT~la~~la~   68 (331)
T 2r44_A           48 HILLEGVPGLAKTLSVNTLAK   68 (331)
T ss_dssp             CEEEESCCCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            689999999999999998865

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=91.35  E-value=0.12  Score=42.10  Aligned_cols=24  Identities=21%  Similarity=0.189  Sum_probs=20.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..+++.|+|.+|+||||+..++..
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHH
Confidence            357999999999999999988854

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=91.32  E-value=0.1  Score=47.24  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.++++|++|+|||+|++.+...
T Consensus       202 ~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          202 NNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             CEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999987653

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=91.26  E-value=0.11  Score=48.61  Aligned_cols=22  Identities=23%  Similarity=0.519  Sum_probs=19.8

Q ss_pred             EEEEcCCCChHHHHHHHHhcCC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      ++|+|..|+|||||++.+.+-.
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            6899999999999999998753

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=91.22  E-value=0.11  Score=44.84  Aligned_cols=22  Identities=23%  Similarity=0.291  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .-|+|+|.+|||||||...+..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            4588999999999999988764

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

Probab=91.19  E-value=0.1  Score=46.68  Aligned_cols=23  Identities=17%  Similarity=0.140  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      --|++.|+||+|||+|++.+.+.
T Consensus       216 rGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          216 KGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CeeEEECcCCCCHHHHHHHHHHH
Confidence            46999999999999999998764

>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=91.19  E-value=0.098  Score=46.90  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      --+++.|++|+|||+|++.+.+.
T Consensus       131 ~~lll~Gp~G~GKTtLa~aia~~  153 (440)
T 2z4s_A          131 NPLFIYGGVGLGKTHLLQSIGNY  153 (440)
T ss_dssp             CCEEEECSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999988653

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=91.16  E-value=0.13  Score=40.96  Aligned_cols=20  Identities=25%  Similarity=0.401  Sum_probs=17.1

Q ss_pred             EEEEEcCCCChHHHHHHHHh
Q 041042           85 KISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~  104 (268)
                      -.+|+|+.|+|||||+..+.
T Consensus        25 ~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHH
Confidence            35788999999999999863

>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=91.15  E-value=0.1  Score=45.31  Aligned_cols=22  Identities=23%  Similarity=0.262  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|++.|++|+|||+|++.+...
T Consensus        86 ~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           86 GILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999988654

>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=91.14  E-value=0.12  Score=45.15  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..+++.|++|+|||++++.+...
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999988653

>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=91.11  E-value=0.11  Score=45.24  Aligned_cols=23  Identities=26%  Similarity=0.167  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      --|++.|++|+|||+|++.+...
T Consensus       118 ~~vLl~GppGtGKT~la~aia~~  140 (357)
T 3d8b_A          118 KGILLFGPPGTGKTLIGKCIASQ  140 (357)
T ss_dssp             SEEEEESSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999998653

>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=91.07  E-value=0.12  Score=44.13  Aligned_cols=22  Identities=18%  Similarity=0.273  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|+|+|++|||||+|...+...
T Consensus         5 ~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCcCCHHHHHHHHHHh
Confidence            4789999999999999998653

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=91.02  E-value=0.15  Score=41.49  Aligned_cols=22  Identities=23%  Similarity=0.533  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|++.|..|+||||+++.+..
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~   24 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5689999999999999998865

>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=90.99  E-value=0.11  Score=45.95  Aligned_cols=20  Identities=20%  Similarity=0.411  Sum_probs=18.2

Q ss_pred             EEEEEcCCCChHHHHHHHHh
Q 041042           85 KISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~  104 (268)
                      -+.|+|++|+|||||+..+.
T Consensus       180 i~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          180 ITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCChHHHHHHHH
Confidence            58899999999999999875

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=90.96  E-value=0.1  Score=48.07  Aligned_cols=21  Identities=29%  Similarity=0.366  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -++++|++|+|||+|++.+.+
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998865

---

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	268
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	1e-19
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	1e-19
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	2e-18
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-17
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	3e-17
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	4e-17
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	6e-16
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-15
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-15
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	5e-15
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	7e-15
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	1e-14
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	2e-14
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	2e-14
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	3e-14
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	4e-14
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	2e-13
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	3e-13
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	3e-13
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-13
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	2e-12
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	3e-12
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	3e-12
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	4e-12
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	5e-12
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	9e-12
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	2e-11
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	2e-11
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	2e-10
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	2e-10
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	2e-10
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	2e-10
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	5e-10
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	5e-10
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	6e-10
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	1e-09
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	1e-09
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-09
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	3e-09
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	6e-09
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	8e-09
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	9e-09
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-08
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	3e-08
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	5e-08
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	8e-08
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	2e-07
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	2e-07
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	6e-07
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	2e-06
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	4e-05
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	1e-04
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	5e-04
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	6e-04
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	0.002

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

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]

 Score = 81.5 bits (200), Expect = 1e-19
 Identities = 31/166 (18%), Positives = 60/166 (36%), Gaps = 4/166 (2%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++GD  +GK+  L ++   +         G+    + + V G +I   IW+  G  
Sbjct: 5   FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQE 64

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           + +       + +   L ++D+T R T   +  W   AR        II+     D    
Sbjct: 65  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEA- 123

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
               +     +A+ +A+        +SA    NV         K++
Sbjct: 124 ---QRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIY 166

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

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]

 Score = 81.3 bits (200), Expect = 1e-19
 Identities = 30/165 (18%), Positives = 63/165 (38%), Gaps = 4/165 (2%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GKT  L ++  D          G++   +T+ + G RI   IW+  G  
Sbjct: 7   FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQE 66

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           + +       + ++ I+ ++D+T+  +  ++  W +   +     +  +I     D    
Sbjct: 67  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVND- 125

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
               +     +    A         +SA  NINV      +   +
Sbjct: 126 ---KRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDI 167

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

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]

 Score = 77.9 bits (191), Expect = 2e-18
 Identities = 36/167 (21%), Positives = 74/167 (44%), Gaps = 5/167 (2%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +KI L+GD  +GK+  L ++V D+         G++   KT+ + G ++   IW+  G  
Sbjct: 3   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE 62

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           + +       + ++ I+ ++D+T   T  ++ +W++   +       +++     D    
Sbjct: 63  RFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET- 121

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
               +   A Q  A AK L      SSA  + NVN+I   +   + +
Sbjct: 122 ----RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 164

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

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]

 Score = 75.3 bits (184), Expect = 2e-17
 Identities = 39/169 (23%), Positives = 78/169 (46%), Gaps = 6/169 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+GD  +GK++ L ++  +E         G+    +++ V G  I   IW+  G  
Sbjct: 5   FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE 64

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIII-GTKFDDFIQ 202
           + +       + ++  L ++D+    T ++V RW ++ R    + I I++ G K D    
Sbjct: 65  RYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 124

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
                +     +ARA+A+  N +   +SA  + NV +  K I  +++ I
Sbjct: 125 -----RAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRI 168

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

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]

 Score = 75.3 bits (184), Expect = 3e-17
 Identities = 33/180 (18%), Positives = 72/180 (40%), Gaps = 4/180 (2%)

Query: 77  DADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSI 136
           D D L  LKI ++G+  +GK+S L ++  D  +   +   G++   KT+ V G +   +I
Sbjct: 1   DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAI 60

Query: 137 WEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTK 196
           W+  G  + +   P   + +  ++ ++D+T R T   +  W  +          + +   
Sbjct: 61  WDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVG 120

Query: 197 FDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLE 256
                +     +    ++   +A+  +     +SA     V    + +  K+   P   E
Sbjct: 121 NKIDKE----NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWE 176

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

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]

 Score = 74.8 bits (183), Expect = 4e-17
 Identities = 31/166 (18%), Positives = 74/166 (44%), Gaps = 6/166 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI L+G+  +GKT  + ++       G     G++ M KT+ + G ++   IW+  G  
Sbjct: 6   FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQE 65

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQ 202
           + +       + + A++  +D+T   + + +  W ++  +     +  +++G K D   +
Sbjct: 66  RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER 125

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                +     +A  +++A +     +SA  + NV K+   +  +L
Sbjct: 126 -----REVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 166

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

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]

 Score = 71.4 bits (174), Expect = 6e-16
 Identities = 33/168 (19%), Positives = 69/168 (41%), Gaps = 5/168 (2%)

Query: 82  VALKISLLGDCHIGKTSFLEKYVGDE-KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVT 140
           VA K+ L+GD  +GKT  L ++              G++  +K L V G ++   +W+  
Sbjct: 5   VAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTA 64

Query: 141 GDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDF 200
           G  + +       +D+ A+L ++D+T++ +  ++  W  +  +  Q  + +++     D 
Sbjct: 65  GQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVD- 123

Query: 201 IQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                  +          AK        +SA   +NV+     I  +L
Sbjct: 124 ---SAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 168

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

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]

 Score = 70.7 bits (172), Expect = 2e-15
 Identities = 30/167 (17%), Positives = 67/167 (40%), Gaps = 4/167 (2%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ L+G+  +GK+  L ++  D          G++   KT+ + G  +   IW+  G  
Sbjct: 7   FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQE 66

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           + +       + S  I+ ++D+T + +   V  W Q+  +   + +  ++     D    
Sbjct: 67  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDL--- 123

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
             D +      A+ +A A       +SA  + NV      +  ++ +
Sbjct: 124 -KDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKE 169

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 69.9 bits (170), Expect = 2e-15
 Identities = 28/166 (16%), Positives = 64/166 (38%), Gaps = 4/166 (2%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++GD  +GK+  L ++     +       G+    + + + G +I   IW+  G  
Sbjct: 4   FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQE 63

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
             +       + +   L ++D+T R T   +  W + AR+ + + + I++     D    
Sbjct: 64  SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLES- 122

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
               +     +  A+A+        +SA    NV +       +++
Sbjct: 123 ---RRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIY 165

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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]

 Score = 68.8 bits (167), Expect = 5e-15
 Identities = 35/167 (20%), Positives = 75/167 (44%), Gaps = 4/167 (2%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLG+  +GKTS + +Y  ++         G + + K L + G R++ +IW+  G  
Sbjct: 4   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQE 63

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           +     P+  +DS   + ++D+T   + + V  W ++ RK     I + I     D  + 
Sbjct: 64  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 123

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
                        +YA+++ A  + +SA  N  + ++   +  ++ +
Sbjct: 124 RHVSIQEA----ESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 166

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

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]

 Score = 68.4 bits (166), Expect = 7e-15
 Identities = 38/168 (22%), Positives = 73/168 (43%), Gaps = 6/168 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI ++G+  +GKTSFL +Y  D          G++   KT+     RI   IW+  G  
Sbjct: 6   FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQE 65

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFIQ 202
           + +       + ++  + M+D+T+  +  +V  W  Q +  +     + ++G K D   +
Sbjct: 66  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE 125

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
                +   + + R  A  L    F +SA  NINV +  + +   + +
Sbjct: 126 -----RVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICE 168

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

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]

 Score = 67.7 bits (164), Expect = 1e-14
 Identities = 36/165 (21%), Positives = 76/165 (46%), Gaps = 6/165 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+  LG+  +GKTS + +++ D  +       G++ + KT+ +    I   +W+  G  +
Sbjct: 2   KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQER 61

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDFIQL 203
            +  +P   +DS A + ++D+T+  + +   +W    R    + + I ++G K D   + 
Sbjct: 62  FRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKR 121

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            + ++          AK LN     +SA    NV ++ + + A L
Sbjct: 122 QVSIEEG-----ERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

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]

 Score = 67.4 bits (163), Expect = 2e-14
 Identities = 42/189 (22%), Positives = 81/189 (42%), Gaps = 10/189 (5%)

Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V LK+ +LGD  +GKTS + +YV  +         G + + K ++V    ++  IW+  G
Sbjct: 1   VLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAG 60

Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWY----QQARKCNQTAIPIIIGTKF 197
             + Q       + +   + +FD+T+  T K++  W      QA   +    P ++    
Sbjct: 61  QERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVV---- 116

Query: 198 DDFIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKLFDIPWTLE 256
               ++ ++ +     +A+A+  + N   +F +SA   INV +  + I          +E
Sbjct: 117 -LGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVE 175

Query: 257 RNLTIGEPI 265
                 EPI
Sbjct: 176 LYNEFPEPI 184

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

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]

 Score = 67.2 bits (163), Expect = 2e-14
 Identities = 31/167 (18%), Positives = 61/167 (36%), Gaps = 4/167 (2%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K  ++G+   GK+  L +++  + +   +   G+    K + V G  +   IW+  G  
Sbjct: 6   FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQE 65

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           + +       + +   L ++D+TSR T  ++  W   AR      I II+     D    
Sbjct: 66  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD 125

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFD 250
                         +A+        +SA    NV +       K+ +
Sbjct: 126 REVTFLEA----SRFAQENELMFLETSALTGENVEEAFVQCARKILN 168

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

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]

 Score = 67.0 bits (162), Expect = 3e-14
 Identities = 32/165 (19%), Positives = 71/165 (43%), Gaps = 1/165 (0%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +K+ LLG+  +GK+S + ++V ++  +   P  G   + + + +    + + IW+  G  
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           +     P+  +++ A L ++D+T   +      W ++  +     I I +     D +Q 
Sbjct: 64  RFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQE 123

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             + +     +    A+      F +SA    NVN +   I  K+
Sbjct: 124 GGERKVAR-EEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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]

 Score = 66.1 bits (160), Expect = 4e-14
 Identities = 25/166 (15%), Positives = 63/166 (37%), Gaps = 8/166 (4%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ +LG   +GK++   ++V     +   P        +  +         I +  G  +
Sbjct: 5   KVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSS-PSVLEILDTAGTEQ 63

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIII-GTKFDDFIQ 202
                 +  K+    + ++ L ++ + + +     Q  +  +   +P+I+ G K D   +
Sbjct: 64  FASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESE 123

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                +   +S+ RA A+        +SA     V+++   I  ++
Sbjct: 124 -----REVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

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]

 Score = 64.7 bits (156), Expect = 2e-13
 Identities = 33/170 (19%), Positives = 76/170 (44%), Gaps = 4/170 (2%)

Query: 79  DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWE 138
           + +   K+ LLG+  +GK+S + ++V  +  +      G   + +T+ +    + + IW+
Sbjct: 2   NKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWD 61

Query: 139 VTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFD 198
             G  +     P+  + + A + ++D+T+  +      W ++ ++     I I +     
Sbjct: 62  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121

Query: 199 DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
           D      + +     +A++YA   +     +SA  ++NVN+I   I  KL
Sbjct: 122 DL----ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

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]

 Score = 64.3 bits (155), Expect = 3e-13
 Identities = 40/165 (24%), Positives = 82/165 (49%), Gaps = 4/165 (2%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ LLGD  +GK+S + ++V D  +   +P  G + M KT+  +     + IW+  G  
Sbjct: 5   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 64

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           + +   P+  + S A + ++D+T   T  ++  W ++ R+    +I + I     D    
Sbjct: 65  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTD- 123

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
              ++  +   A+ YA +++A    +SA   IN+N++   I+ ++
Sbjct: 124 ---VREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 165

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

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]

 Score = 64.0 bits (154), Expect = 3e-13
 Identities = 28/167 (16%), Positives = 71/167 (42%), Gaps = 5/167 (2%)

Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           VA+K+ ++G+  +GK+S +++Y      +      G++ +++ + V    +   +W+  G
Sbjct: 1   VAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAG 60

Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFI 201
             +         + + A + +F  T R + +++  W ++           ++  K D   
Sbjct: 61  QEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLD 120

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
              I  +          AK L    + +S   ++NV+++ K++  K 
Sbjct: 121 DSCIKNEEA-----EGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 162

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

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]

 Score = 63.5 bits (153), Expect = 3e-13
 Identities = 23/165 (13%), Positives = 59/165 (35%), Gaps = 5/165 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           ++I ++G    GKT+ L K    E            +      V    IS+++W+V G  
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIVTTIP-----TIGFNVETVEYKNISFTVWDVGGQD 55

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           K +       +++  ++F+ D   R  +        +    ++    +++       +  
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 115

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            ++             +  N  +  + AT    + + L +++ +L
Sbjct: 116 AMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

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]

 Score = 62.0 bits (149), Expect = 2e-12
 Identities = 19/164 (11%), Positives = 57/164 (34%), Gaps = 4/164 (2%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           ++ ++G   +GK++   +++         P    +   + ++         I +  G  +
Sbjct: 7   RLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDR-AARLDILDTAGQEE 65

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLP 204
                    +     L +F +T R + + + ++ +Q  +        +I       +   
Sbjct: 66  FGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQ 125

Query: 205 IDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
              +     + +  A+ L  T   +SA   +NV++    +   +
Sbjct: 126 ---RQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVI 166

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

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]

 Score = 61.2 bits (147), Expect = 3e-12
 Identities = 19/165 (11%), Positives = 59/165 (35%), Gaps = 7/165 (4%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ ++G   +GK++   + + +       P    +   K +++ G      I +  G  +
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEE 63

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQL 203
                    +     L +F + +  + + + ++ +Q  R  +   +P+++     D    
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAAR 123

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            ++ +       +  A++       +SA     V      +  ++
Sbjct: 124 TVESRQA-----QDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

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]

 Score = 61.5 bits (148), Expect = 3e-12
 Identities = 33/170 (19%), Positives = 70/170 (41%), Gaps = 10/170 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ LLGD  +GK+S + +YV ++ +       G+  ++K L V G  ++  IW+  G  
Sbjct: 7   FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQE 66

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ----ARKCNQTAIPIIIGTKFDD 199
           + +       + S   L  F +    + +++  W ++    A      + P +I     D
Sbjct: 67  RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKID 126

Query: 200 FIQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKL 248
             +     +     +A+A+ +      +F +SA    NV    +    ++
Sbjct: 127 ISE-----RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

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]

 Score = 61.4 bits (148), Expect = 4e-12
 Identities = 37/175 (21%), Positives = 71/175 (40%), Gaps = 13/175 (7%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV----------RGARIS 133
           +K+  LGD  +GKT+FL +Y  ++         G++  +K ++           +  ++ 
Sbjct: 6   IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVH 65

Query: 134 YSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIII 193
             +W+  G  + +       +D++  L MFDLTS+ +  +V  W  Q +       P I+
Sbjct: 66  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV 125

Query: 194 GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                  +      +     QAR  A       F +SA    NV K ++ +   +
Sbjct: 126 LIGNKADLPDQ---REVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLI 177

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score = 60.7 bits (146), Expect = 5e-12
 Identities = 24/165 (14%), Positives = 57/165 (34%), Gaps = 5/165 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           ++I +LG    GKT+ L K    +          +    +T+  +   + +++W+V G  
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQSVT---TIPTVGFNVETVTYKN--VKFNVWDVGGQD 67

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
           K +         +  ++F+ D   R  +    +   +     +    II+       +  
Sbjct: 68  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 127

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            +              +  N  +  S AT    + + L ++T+  
Sbjct: 128 AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 172

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

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]

 Score = 60.4 bits (145), Expect = 9e-12
 Identities = 28/179 (15%), Positives = 59/179 (32%), Gaps = 10/179 (5%)

Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
            +K  ++GD  +GKT  L  Y  ++      P    N     +++ G   +  +++  G 
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVT-VMIGGEPYTLGLFDTAGQ 61

Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDF- 200
                  P++   +   L  F + S  + ++V   +      +    P  ++GT+ D   
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRD 121

Query: 201 ------IQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKLFDIP 252
                        +      A   A+ L A  +   SA     +  +         + P
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 180

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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]

 Score = 58.8 bits (141), Expect = 2e-11
 Identities = 30/165 (18%), Positives = 64/165 (38%), Gaps = 5/165 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ +LG   +GK++   ++V     +   P    +   K + V   +    I +  G  +
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTEQ 63

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQL 203
                 +  K+      ++ +T++ T   +    +Q  +   T  +P+I+     D    
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDE 123

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            +  +    + AR +    N     SSA   INVN+I   +  ++
Sbjct: 124 RVVGKEQGQNLARQW---CNCAFLESSAKSKINVNEIFYDLVRQI 165

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

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]

 Score = 59.2 bits (142), Expect = 2e-11
 Identities = 30/173 (17%), Positives = 60/173 (34%), Gaps = 10/173 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK  ++GD  +GKT  L  Y  D   +   P    +    ++ V G +    +++  G  
Sbjct: 10  LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQE 68

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQ 202
                 P++   +   L  F + +  + ++V   +    K     +P ++IGT+ D    
Sbjct: 69  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDD 128

Query: 203 LPIDLQ-------WTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAK 247
                +            Q +  AK + A  +   SA     +  +       
Sbjct: 129 PKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIA 181

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

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]

 Score = 56.6 bits (135), Expect = 2e-10
 Identities = 30/171 (17%), Positives = 62/171 (36%), Gaps = 10/171 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ ++GD   GKT  L     D+  +   P    N +    +    ++  ++W+  G  
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEVDGK-QVELALWDTAGLE 61

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQA-RKCNQTAIPIIIGTKFDDF-- 200
                 P++  D+  IL  F + S  +L+++   +    +        I++G K D    
Sbjct: 62  DYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRND 121

Query: 201 -----IQLPIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFIT 245
                    +  +     + R  A  + A  +   SA     V ++ +  T
Sbjct: 122 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMAT 172

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

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]

 Score = 56.6 bits (135), Expect = 2e-10
 Identities = 35/179 (19%), Positives = 63/179 (35%), Gaps = 10/179 (5%)

Query: 83  ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGD 142
           A+K  ++GD  +GKT  L  Y  +       P    +     ++V G  ++  +W+  G 
Sbjct: 5   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIP-TVFDNYSANVMVDGKPVNLGLWDTAGQ 63

Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPII-IGTKFDDFI 201
                  P++   +   L  F L S  + ++V   +    + +    PII +GTK D   
Sbjct: 64  EDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRD 123

Query: 202 QLPIDLQWTIAS-------QARAYAKALNATLFF-SSATYNINVNKILKFITAKLFDIP 252
                 +            Q  A AK + A  +   SA     +  +       +   P
Sbjct: 124 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 182

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

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]

 Score = 56.1 bits (134), Expect = 2e-10
 Identities = 28/171 (16%), Positives = 68/171 (39%), Gaps = 8/171 (4%)

Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
           +L   K+ ++G   +GK++   +++ DE  +   P +  +   K +++ G  +   I + 
Sbjct: 1   SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILDT 59

Query: 140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR--KCNQTAIPIIIGTKF 197
            G            +     L +F +T   +  +   + +Q    K ++    +++G K 
Sbjct: 60  AGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKS 119

Query: 198 DDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
           D   +     +     +A+  A   N     +SA    NV+K+   +  ++
Sbjct: 120 DLEDK-----RQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

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]

 Score = 56.2 bits (134), Expect = 2e-10
 Identities = 41/177 (23%), Positives = 71/177 (40%), Gaps = 11/177 (6%)

Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  KI ++GD   GKT+ L  +  D   +   P    N       +   RI  S+W+ +G
Sbjct: 1   VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSLWDTSG 59

Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPI-IIGTKFDDF 200
                +  P++  DS A+L  FD++   TL SV++ ++   +       + ++G K D  
Sbjct: 60  SPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLR 119

Query: 201 IQLPIDLQWT-------IASQARAYAKALNATLFF-SSATYNIN-VNKILKFITAKL 248
             +   ++ +          Q    AK + A  +   SA  + N V  I    T   
Sbjct: 120 TDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC 176

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

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]

 Score = 55.4 bits (132), Expect = 5e-10
 Identities = 16/165 (9%), Positives = 52/165 (31%), Gaps = 5/165 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+ ++G  + GKT+ L ++  +E            +      +      + +W++ G  
Sbjct: 16  HKVIIVGLDNAGKTTILYQFSMNEVVHTSPT-----IGSNVEEIVINNTRFLMWDIGGQE 70

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
             +        ++  ++ + D T R  +        +           ++       ++ 
Sbjct: 71  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 130

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            + +            K     +    A     + + L+++ ++L
Sbjct: 131 CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 175

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

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]

 Score = 55.1 bits (131), Expect = 5e-10
 Identities = 38/172 (22%), Positives = 76/172 (44%), Gaps = 9/172 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARI-SYSIWEVTGD 142
           LK+ +LGD  +GKTS + +YV D+  Q      G + + K + V G ++ +  +W+  G 
Sbjct: 3   LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQ 62

Query: 143 AKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQAR-----KCNQTAIPIIIGTKF 197
            + Q       + +   + ++D+T+  + +++  W  +          +T   +I+G K 
Sbjct: 63  ERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKI 122

Query: 198 DDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLF 249
           D      I  + +    A++     +  LF +SA   INV+   + I     
Sbjct: 123 DAEESKKIVSEKSAQELAKSLG---DIPLFLTSAKNAINVDTAFEEIARSAL 171

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

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]

 Score = 55.0 bits (131), Expect = 6e-10
 Identities = 38/171 (22%), Positives = 72/171 (42%), Gaps = 7/171 (4%)

Query: 82  VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTG 141
           V  K+ L+GD   GKT+F+++++  E E+      G+ +           I +++W+  G
Sbjct: 2   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG 61

Query: 142 DAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFI 201
             K           +   + MFD+TSR T K+V  W++   +  +    ++ G K D   
Sbjct: 62  QEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVD--- 118

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIP 252
                    + +++  + +  N   +  SA  N N  K   ++  KL   P
Sbjct: 119 ----IKDRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDP 165

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

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]

 Score = 53.9 bits (128), Expect = 1e-09
 Identities = 32/162 (19%), Positives = 68/162 (41%), Gaps = 9/162 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI ++GD ++GKT    ++             G++  ++ + + G RI   +W+  G  
Sbjct: 3   FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE 62

Query: 144 K-AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQA-RKCNQTAIPIIIGTKFDDFI 201
           +  +  +    ++  A++F++D+T+  +  S+  W ++  +      IP I+     D  
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCD-- 120

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSA---TYNINVNKI 240
                        A+ +A   +  LF +SA     N +V  I
Sbjct: 121 --LRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAI 160

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.3 bits (129), Expect = 1e-09
 Identities = 24/166 (14%), Positives = 57/166 (34%), Gaps = 8/166 (4%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ ++G   +GK++   +++              +   K   V G      I +  G  +
Sbjct: 8   KLVVVGGGGVGKSALTIQFIQSYFVS-DYDPTIEDSYTKICSVDGIPARLDILDTAGQEE 66

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQ 202
                    +     L +F +  R +   V + + Q  +         +++G K D   Q
Sbjct: 67  FGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQ 126

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
             +           A+  + +   F +SA   +NV++  + +   +
Sbjct: 127 RQVPRSEA-----SAFGASHHVAYFEASAKLRLNVDEAFEQLVRAV 167

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

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]

 Score = 53.5 bits (127), Expect = 2e-09
 Identities = 28/171 (16%), Positives = 63/171 (36%), Gaps = 7/171 (4%)

Query: 80  NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
           NL   K+ ++GD  +GK++   ++          P    +   K   +        + + 
Sbjct: 1   NLPTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDP-TIEDSYLKHTEIDNQWAILDVLDT 59

Query: 140 TGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFD 198
            G  +         +     L ++ +T + + + V R++Q   R  ++ + P+I+     
Sbjct: 60  AGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKV 119

Query: 199 DFIQLPIDLQWTIASQARAYAKALNATLFFSSA-TYNINVNKILKFITAKL 248
           D     + L+     Q +  A   N     +SA    +NV+K    +   +
Sbjct: 120 D----LMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 166

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

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]

 Score = 52.7 bits (125), Expect = 3e-09
 Identities = 20/166 (12%), Positives = 57/166 (34%), Gaps = 7/166 (4%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           ++I LLG  + GKT+ L++   ++                   V+      ++W++ G  
Sbjct: 17  VRILLLGLDNAGKTTLLKQLASEDISHITPT-----QGFNIKSVQSQGFKLNVWDIGGQR 71

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRW-YQQARKCNQTAIPIIIGTKFDDFIQ 202
           K + +     +++  ++++ D   R   +   +   +   +   + +P++I     D + 
Sbjct: 72  KIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLT 131

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
                            +     +   SA     V   + ++   +
Sbjct: 132 -AAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

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]

 Score = 52.3 bits (124), Expect = 6e-09
 Identities = 28/167 (16%), Positives = 61/167 (36%), Gaps = 9/167 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           L+I +LG    GKT+ L +    E      P  G N+      +    +  ++W++ G  
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVVTT-KPTIGFNVET----LSYKNLKLNVWDLGGQT 72

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARK--CNQTAIPIIIGTKFDDFI 201
             + +      D+ A++F+ D T +  + +  +      +    Q A  ++   K D   
Sbjct: 73  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQ-- 130

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
              +              K  + ++  SSA     + + L ++   +
Sbjct: 131 PGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVI 177

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

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]

 Score = 51.6 bits (122), Expect = 8e-09
 Identities = 23/162 (14%), Positives = 62/162 (38%), Gaps = 6/162 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           ++++L+G  + GKT+F+      +  +   P     +      +    ++  +W++ G  
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIP----TVGFNMRKITKGNVTIKLWDIGGQP 58

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ-ARKCNQTAIPIIIGTKFDDFIQ 202
           + +      C+   AI++M D   +  +++          K     IP+++     D   
Sbjct: 59  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 118

Query: 203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI 244
             +D +  I     +  +      +  S     N++  L+++
Sbjct: 119 -ALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWL 159

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

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]

 Score = 51.5 bits (122), Expect = 9e-09
 Identities = 28/163 (17%), Positives = 66/163 (40%), Gaps = 9/163 (5%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           ++++ G   +GK+S + ++V     +   P             +    +  I + TG  +
Sbjct: 4   RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKS-ICTLQITDTTGSHQ 62

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP---IIIGTKFDDFI 201
                 ++     A + ++ +TSR +L+ +   Y+Q  +          +++G K D+  
Sbjct: 63  FPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESP 122

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI 244
                 +   +S+A A A+        +SA  N NV ++ + +
Sbjct: 123 S-----REVQSSEAEALARTWKCAFMETSAKLNHNVKELFQEL 160

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

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]

 Score = 50.1 bits (118), Expect = 2e-08
 Identities = 22/165 (13%), Positives = 58/165 (35%), Gaps = 5/165 (3%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           ++I +LG    GKT+ L +    E            +      V    + + +W++ G  
Sbjct: 6   MRILILGLDGAGKTTILYRLQVGEVVTTIP-----TIGFNVETVTYKNLKFQVWDLGGLT 60

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
             + +      ++ A++++ D   R  +           +  +    I++       ++ 
Sbjct: 61  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ 120

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            +       S      K     +F +SAT    +++ ++++   L
Sbjct: 121 AMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETL 165

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

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]

 Score = 50.1 bits (118), Expect = 3e-08
 Identities = 24/167 (14%), Positives = 61/167 (36%), Gaps = 9/167 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           L++ +LG  + GKT+ L+K+ G++ +          +      +       +IW+V G  
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGEDVDTISP-----TLGFNIKTLEHRGFKLNIWDVGGQK 57

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA--IPIIIGTKFDDFI 201
             + +     + +  ++++ D   R  ++   R  Q      + A    +I   K D   
Sbjct: 58  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG 117

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            L  +             ++ +  +   SA    ++   + ++   +
Sbjct: 118 ALSCNAIQEALEL--DSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDI 162

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

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]

 Score = 49.3 bits (116), Expect = 5e-08
 Identities = 17/168 (10%), Positives = 44/168 (26%), Gaps = 12/168 (7%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+  LG  + GKT+ L     D                 +  +    I ++ +++ G  +
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRLATLQP-----TWHPTSEELAIGNIKFTTFDLGGHIQ 56

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLP 204
           A+        +   I+F+ D                     +      +           
Sbjct: 57  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA 116

Query: 205 ID-------LQWTIASQARAYAKALNATLFFSSATYNINVNKILKFIT 245
           +        L     + ++         +F  S        +  ++++
Sbjct: 117 VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLS 164

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

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]

 Score = 48.6 bits (114), Expect = 8e-08
 Identities = 30/163 (18%), Positives = 58/163 (35%), Gaps = 8/163 (4%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            KI++LG   +GK+S   ++V  +      P    N   K + V G      + +  G  
Sbjct: 5   RKIAILGYRSVGKSSLTIQFVEGQFVDSYDP-TIENTFTKLITVNGQEYHLQLVDTAGQD 63

Query: 144 KAQDHLPVACKDSIAILFMFDLT--SRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFI 201
           +          D    + ++ +T      +  VI               +++G K D  +
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 123

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFI 244
           +     +     + +A A++ NA    SSA  N     + + I
Sbjct: 124 E-----RVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI 161

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

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]

 Score = 47.8 bits (112), Expect = 2e-07
 Identities = 25/164 (15%), Positives = 53/164 (32%), Gaps = 5/164 (3%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           K+ LLG   +GK++    + G E                 +    A +           +
Sbjct: 3   KVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGR 62

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLP 204
                 +A  D+  I++           S +R   +  +       I++G K D      
Sbjct: 63  WLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSRE 122

Query: 205 IDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
           + +      + RA A   +     +SA  + NV  + + +  ++
Sbjct: 123 VSVD-----EGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 161

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

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]

 Score = 47.7 bits (112), Expect = 2e-07
 Identities = 21/167 (12%), Positives = 58/167 (34%), Gaps = 7/167 (4%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           L++ +LGD   GK+S + +++    +            +  +  +    ++ +       
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQYKKEMLVDGQ----THLVLIREEAG 61

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
                        I +  + D  S   +  +       R   +  + + +    D     
Sbjct: 62  APDAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISAS 121

Query: 204 PIDLQWTIASQARAYAKALNATLFF-SSATYNINVNKILKFITAKLF 249
              +     ++ARA    +    ++ + ATY +NV+++ + +  K+ 
Sbjct: 122 SPRVVGD--ARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVV 166

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

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]

 Score = 46.3 bits (108), Expect = 6e-07
 Identities = 28/167 (16%), Positives = 60/167 (35%), Gaps = 7/167 (4%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDE-KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           ++ L+G+  +GK++    + G            G +  ++TL+V G   +  + ++  + 
Sbjct: 5   RVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENK 64

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTL--KSVIRWYQQARKCNQTAIPIIIGTKFDDFI 201
              + L   C        +    +      K+     Q  R      IPII+     D +
Sbjct: 65  GENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV 124

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
           +           + RA A   +     +SA    NV ++ + I  ++
Sbjct: 125 RCREVSVS----EGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 167

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

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]

 Score = 45.1 bits (105), Expect = 2e-06
 Identities = 24/177 (13%), Positives = 53/177 (29%), Gaps = 17/177 (9%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
            K+  LG  + GKT+ L     D   Q         +   +  +  A ++++ +++ G  
Sbjct: 14  GKLVFLGLDNAGKTTLLHMLKDDRLGQHVP-----TLHPTSEELTIAGMTFTTFDLGGHI 68

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQ--ARKCNQTAIPIIIGTKFDDFI 201
           +A+            I+F+ D      L             +       +I+G K D   
Sbjct: 69  QARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE 128

Query: 202 QLPID----------LQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            +  +                S +     A    +F  S        +  +++   +
Sbjct: 129 AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

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]

 Score = 40.8 bits (94), Expect = 4e-05
 Identities = 22/168 (13%), Positives = 56/168 (33%), Gaps = 10/168 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +K+++ G   +GK++ + +++         P   L    +        +       T   
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDP--TLESTYRHQATIDDEVVSMEILDTAGQ 60

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFI 201
           +         +     + ++D+T R + + V+       +    +    I++G K D   
Sbjct: 61  EDTIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKAD--- 117

Query: 202 QLPIDLQWTIASQARAYAKALNATLFFSSA-TYNINVNKILKFITAKL 248
                 +     +    A  L    +  SA T   N+ +I   +  ++
Sbjct: 118 --LDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREV 163

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

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]

 Score = 39.9 bits (92), Expect = 1e-04
 Identities = 23/180 (12%), Positives = 52/180 (28%), Gaps = 8/180 (4%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           LK+ LLG    GK++F+++           P  G+             + + + +V G  
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHGSG--VPTTGIIEYP----FDLQSVIFRMVDVGGQR 56

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
             +       ++  +I+F+  L+    +        +  +       II    F +    
Sbjct: 57  SERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSV- 115

Query: 204 PIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDIPWTLERNLTIGE 263
            I               +     F        +     +FI     D+    ++ +    
Sbjct: 116 -ILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHF 174

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

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]

 Score = 38.0 bits (87), Expect = 5e-04
 Identities = 20/122 (16%), Positives = 43/122 (35%), Gaps = 7/122 (5%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA 143
           +KI LLG    GK++FL++      +    P +G++  D         + + + +V G  
Sbjct: 3   VKILLLGAGESGKSTFLKQMRIIHGQD---PTKGIHEYD----FEIKNVPFKMVDVGGQR 55

Query: 144 KAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL 203
             +           +ILF+   +    +    R   +  +       I+    F +   +
Sbjct: 56  SERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSII 115

Query: 204 PI 205
             
Sbjct: 116 LF 117

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

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]

 Score = 37.4 bits (85), Expect = 6e-04
 Identities = 26/172 (15%), Positives = 54/172 (31%), Gaps = 19/172 (11%)

Query: 84  LKISLLGDCHIGKTSFLEKYVGDEK----EQGGSPGEGLNMMDKTLLVRGARISYSIWEV 139
           +K+ + G  + GK+S L    G E     +  G+  + L        +    I  +    
Sbjct: 2   MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLRE 61

Query: 140 TGDAKAQDHLPVACK---DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTK 196
             D   +  +  A +    +  +LFM D T+   +     W +   +        ++  K
Sbjct: 62  ASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNK 121

Query: 197 FDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKL 248
            D            I  +    ++     L   SA     V+ +   +   +
Sbjct: 122 AD------------ITGETLGMSEVNGHALIRLSARTGEGVDVLRNHLKQSM 161

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

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]

 Score = 36.3 bits (83), Expect = 0.002
 Identities = 23/179 (12%), Positives = 57/179 (31%), Gaps = 20/179 (11%)

Query: 85  KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK 144
           ++ LLG    GK++ +++              G+         +  ++++ +++V G   
Sbjct: 8   RLLLLGAGESGKSTIVKQMRILHV----VLTSGIFETK----FQVDKVNFHMFDVGGQRD 59

Query: 145 AQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTA-----------IPIII 193
            +        D  AI+F+   +S   +        + ++                I +I+
Sbjct: 60  ERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVIL 119

Query: 194 -GTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILKFITAKLFDI 251
              K D   +  +  +  I      +A+             +  V +   FI  +   I
Sbjct: 120 FLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRI 178

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	268
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	100.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.97
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.97
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.96
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.96
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.93
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.93
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.92
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.92
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.9
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.89
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.89
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.88
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.86
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.85
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.85
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.84
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.84
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.81
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.81
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.8
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.76
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.76
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.74
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.73
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.71
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.68
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.67
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.65
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.58
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.58
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.42
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.4
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.39
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.37
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.36
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.36
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.24
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.18
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.05
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.93
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.91
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.84
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.67
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.62
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	98.54
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.36
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.21
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.94
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.92
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.78
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.69
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.66
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	97.47
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.42
d1okkd2	207	GTPase domain of the signal recognition particle r	97.39
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.33
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.28
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.27
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.08
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.94
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.78
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.76
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.61
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.59
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	96.57
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.57
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.55
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.48
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.45
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.4
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.35
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.34
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.34
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.29
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.29
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.28
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.26
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.19
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.11
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.09
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.06
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.03
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.01
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.99
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.93
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.83
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.8
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.8
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.8
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.78
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	95.73
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.72
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.7
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.69
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.68
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.68
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.67
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.63
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.62
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.61
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.59
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.59
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.56
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.49
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	95.47
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.46
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.43
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.41
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.35
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.29
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.27
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.25
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	95.23
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.21
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.15
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.13
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.07
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.06
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	95.04
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	95.0
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.96
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	94.88
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.88
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.82
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	94.81
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.67
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	94.62
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.6
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	94.53
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	94.5
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	94.49
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	94.45
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.29
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	94.12
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.87
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	93.84
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	93.76
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	93.71
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	93.61
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	93.59
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	93.56
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	93.49
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.46
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	93.44
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	93.27
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.25
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	93.17
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	92.79
d1ls1a2	207	GTPase domain of the signal sequence recognition p	92.65
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	92.64
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	92.54
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	92.38
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.37
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	92.32
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	92.15
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	92.13
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	92.09
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	92.07
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	92.0
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	91.82
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	91.78
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.72
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	91.68
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	91.33
d1mlda1	144	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	91.18
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	91.13
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	91.05
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	90.89
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	90.88
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	90.81
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	90.73
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	90.54
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	90.5
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	90.49
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	90.47
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	90.45
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	90.05
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	90.03
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	89.82
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	89.82
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	89.55
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	89.45
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	89.31
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	89.11
d1guza1	142	Malate dehydrogenase {Chlorobium vibrioforme [TaxI	88.97
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	88.95
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	88.81
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	88.65
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	88.65
d1pzga1	154	Lactate dehydrogenase {Toxoplasma gondii [TaxId: 5	88.6
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	88.45
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	88.03
d1xpua3	289	Transcription termination factor Rho, ATPase domai	87.91
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	87.75
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	87.75
d1ez4a1	146	Lactate dehydrogenase {Lactobacillus pentosus [Tax	87.37
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	86.52
d1tuea_	205	Replication protein E1 helicase domain {Human papi	86.28
d1hyha1	146	L-2-hydroxyisocapronate dehydrogenase, L-HICDH {La	86.27
d1t2da1	150	Lactate dehydrogenase {Malaria parasite (Plasmodiu	86.16
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	85.79
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	85.58
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	85.5
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	84.46
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	84.43
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	83.7
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	83.37
d1ldna1	148	Lactate dehydrogenase {Bacillus stearothermophilus	83.34
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	82.85
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	82.25
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	81.82
d1a5za1	140	Lactate dehydrogenase {Thermotoga maritima [TaxId:	81.25
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	80.34
d1y6ja1	142	Lactate dehydrogenase {Clostridium thermocellum [T	80.32
d2cmda1	145	Malate dehydrogenase {Escherichia coli [TaxId: 562	80.08

>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=100.00  E-value=1.2e-38  Score=251.06  Aligned_cols=163  Identities=17%  Similarity=0.367  Sum_probs=151.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||+++|.++.|...+.+|++.++.......++..+.+.+|||+|++++..+...++++++++++|
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   81 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLV   81 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEE
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      ||+++.+||+++..|++++.++.++.|+||||||+|+.     +.+.+..+++++++++++++|++|||++|.||+++|+
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~iilVgnK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~  156 (164)
T d1z2aa1          82 FSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLL-----DDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFK  156 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGG-----GGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHH
T ss_pred             EeccchhhhhhcccccccccccCCCceEEEeeccCCcc-----cceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHH
Confidence            99999999999999999999888787778999999962     2234557889999999999999999999999999999


Q ss_pred             HHHHHHhc
Q 041042          243 FITAKLFD  250 (268)
Q Consensus       243 ~l~~~i~~  250 (268)
                      +|++.+++
T Consensus       157 ~l~~~~lq  164 (164)
T d1z2aa1         157 YLAEKHLQ  164 (164)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhC
Confidence            99998874

>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=100.00  E-value=2.8e-38  Score=249.64  Aligned_cols=164  Identities=23%  Similarity=0.443  Sum_probs=143.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +.+||+|+|++|||||||+++|+++.|.+.+.+|++.++..+.+..++..+.+++||++|++++..++..+++++|++|+
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   81 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAIL   81 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEE
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEE
Confidence            46999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      |||+++++||+++..|++.+.......++ +|||||+|+.     ..+.+..+++++++++++++|+||||++|.||+++
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~-----~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~  156 (167)
T d1z08a1          82 VYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE-----KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEEL  156 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHH
T ss_pred             EEeCCchhHHHhhhhhhhhcccccccccceeeeccccccc-----cccccchHHHHHHHHHcCCeEEEEecCCCcCHHHH
Confidence            99999999999999999988776544444 6999999972     22345588999999999999999999999999999


Q ss_pred             HHHHHHHHhc
Q 041042          241 LKFITAKLFD  250 (268)
Q Consensus       241 f~~l~~~i~~  250 (268)
                      |++|++++++
T Consensus       157 F~~l~~~i~~  166 (167)
T d1z08a1         157 FLDLCKRMIE  166 (167)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhh
Confidence            9999999875

>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=100.00  E-value=1.3e-37  Score=246.70  Aligned_cols=166  Identities=19%  Similarity=0.385  Sum_probs=151.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.|...+.++++.++..+.+.+++..+++++|||+|++.|..+++.++++++++
T Consensus         2 ~~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~   81 (171)
T d2ew1a1           2 YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANAL   81 (171)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceE
Confidence            34579999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      ++|||+++..+|+.+..|+..+.+.....+| ||||||+|+.     +...+..++++.+++.++++|++|||++|.||+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~-----~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~  156 (171)
T d2ew1a1          82 ILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLA-----ERREVSQQRAEEFSEAQDMYYLETSAKESDNVE  156 (171)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-----GGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHH
T ss_pred             EEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccc-----cccchhhhHHHHHHHhCCCEEEEEccCCCCCHH
Confidence            9999999999999999999999887665555 6999999962     223445788999999999999999999999999


Q ss_pred             HHHHHHHHHHhc
Q 041042          239 KILKFITAKLFD  250 (268)
Q Consensus       239 ~~f~~l~~~i~~  250 (268)
                      ++|.+|+++++.
T Consensus       157 e~f~~l~~~l~~  168 (171)
T d2ew1a1         157 KLFLDLACRLIS  168 (171)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988765

>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=100.00  E-value=2.6e-37  Score=244.58  Aligned_cols=167  Identities=23%  Similarity=0.392  Sum_probs=151.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ..+.+||+++|++|||||||+++|.++.|.+.+.++.+.++..+.+..++..+.+++|||+|+++|..+++.+++++|++
T Consensus         2 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~   81 (169)
T d3raba_           2 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGF   81 (169)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEE
T ss_pred             CCeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEE
Confidence            34579999999999999999999999999999999999999989999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++.+++..+..|+..+.......++ +|||||+|+.     ....+..++++.++++++++|++|||++|.||+
T Consensus        82 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~-----~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~  156 (169)
T d3raba_          82 ILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDME-----DERVVSSERGRQLADHLGFEFFEASAKDNINVK  156 (169)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHH
T ss_pred             EEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccc-----cccccchhhhHHHHHHcCCEEEEecCCCCcCHH
Confidence            9999999999999999999888877666555 5899999962     223345788999999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|++.++++
T Consensus       157 e~f~~l~~~i~ek  169 (169)
T d3raba_         157 QTFERLVDVICEK  169 (169)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhhC
Confidence            9999999998764

>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=100.00  E-value=4.8e-37  Score=242.49  Aligned_cols=164  Identities=27%  Similarity=0.458  Sum_probs=150.6

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ++.+||+|+|++|||||||++||++++|...+.+|.+..+.......++....+.+||++|++++..++..++++++++|
T Consensus         2 ~k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i   81 (167)
T d1z0ja1           2 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAI   81 (167)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEE
T ss_pred             CceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceE
Confidence            56899999999999999999999999999999999999998888889999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      +|||++++++|+.+..|+..+.......+| +|||||+|+.     ..+.+..++++++++.++++|+||||++|.||++
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e  156 (167)
T d1z0ja1          82 IVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLT-----DVREVMERDAKDYADSIHAIFVETSAKNAININE  156 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHH
T ss_pred             EEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhc-----cccchhHHHHHHHHHHcCCEEEEEecCCCCCHHH
Confidence            999999999999999999998887766666 5999999971     2344558899999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 041042          240 ILKFITAKLF  249 (268)
Q Consensus       240 ~f~~l~~~i~  249 (268)
                      +|.+|++++.
T Consensus       157 ~f~~l~~~i~  166 (167)
T d1z0ja1         157 LFIEISRRIP  166 (167)
T ss_dssp             HHHHHHHHCC
T ss_pred             HHHHHHHhCC
Confidence            9999999873

>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=100.00  E-value=3e-37  Score=244.26  Aligned_cols=164  Identities=15%  Similarity=0.187  Sum_probs=145.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|+++.|.+.+.+|++..+ .+.+.+++..+.+++||++|++.+..++..+++++|++++
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ll   81 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLI   81 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-ccccccccccccccccccccccccccchhhhhhhccEEEE
Confidence            469999999999999999999999999999999987554 5778889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh-CCCCc-eEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCc-CHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKC-NQTAI-PIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNI-NVN  238 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~-~~~~~-~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~i~  238 (268)
                      |||++|++||+++..|+..+.+. ....+ .||||||+|+.     ..+.+..+++.+++++++++|+||||+++. ||+
T Consensus        82 v~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~-----~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~  156 (169)
T d1x1ra1          82 VYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLM-----HLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVD  156 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCS-----TTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHH
T ss_pred             ecccccchhhhccchhhHHHHhhccccCccEEEEecccchh-----hhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHH
Confidence            99999999999999999998776 33344 47999999972     223455789999999999999999999986 999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|+.|++.+.++
T Consensus       157 ~~F~~l~~~i~~~  169 (169)
T d1x1ra1         157 KTFHDLVRVIRQQ  169 (169)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999988753

>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=100.00  E-value=3.6e-37  Score=242.95  Aligned_cols=163  Identities=20%  Similarity=0.343  Sum_probs=149.3

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +.+||+|+|++|||||||+++|.+++|...+.++.+.++....+.+++..+.+++||++|++.+..++..+++++|++|+
T Consensus         3 y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~il   82 (166)
T d1z0fa1           3 YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM   82 (166)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEE
Confidence            46999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      |||+++.+||+.+..|+..+.......+| ++||||+|+.     .......++++.++++++++|++|||++|.||+++
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~  157 (166)
T d1z0fa1          83 VYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLE-----AQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDA  157 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccch-----hhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999887666666 5999999972     23334478899999999999999999999999999


Q ss_pred             HHHHHHHHh
Q 041042          241 LKFITAKLF  249 (268)
Q Consensus       241 f~~l~~~i~  249 (268)
                      |++|++.++
T Consensus       158 f~~i~~~i~  166 (166)
T d1z0fa1         158 FLEAAKKIY  166 (166)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhC
Confidence            999998874

>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=100.00  E-value=3e-37  Score=247.77  Aligned_cols=172  Identities=16%  Similarity=0.242  Sum_probs=148.4

Q ss_pred             CCCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCc
Q 041042           78 ADNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSI  157 (268)
Q Consensus        78 ~~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~  157 (268)
                      .+....+||+|+|++|||||||+++|+++.|...+.+|++ ++..+.+.+++..+.+.+||++|++.|..++..+++++|
T Consensus         4 ~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~   82 (185)
T d2atxa1           4 GPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTD   82 (185)
T ss_dssp             CCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCS
T ss_pred             CCCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeCCceEEeecccccccchhhhhhhhcccccc
Confidence            3567789999999999999999999999999999999987 456677888999999999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHH-HHHHHHHHhCCCCceEEEEeCCCCCCCC-------CccchhchHHHHHHHHHHhC-CeEEE
Q 041042          158 AILFMFDLTSRCTLKSVI-RWYQQARKCNQTAIPIIIGTKFDDFIQL-------PIDLQWTIASQARAYAKALN-ATLFF  228 (268)
Q Consensus       158 ~vilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~ilvgnK~Dl~~~~-------~~~~~~~~~~~~~~~~~~~~-~~~~~  228 (268)
                      ++++|||+++++||+++. .|...++...++.|.+|||||+||....       ....+.+..+++++++++++ +.|+|
T Consensus        83 ~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E  162 (185)
T d2atxa1          83 VFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVE  162 (185)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEE
T ss_pred             eeeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEE
Confidence            999999999999999876 5666677777677778999999974211       01123455888999999998 79999


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhc
Q 041042          229 SSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      |||++|.||+++|+.++++++.
T Consensus       163 ~SAk~~~gv~e~F~~li~~il~  184 (185)
T d2atxa1         163 CSALTQKGLKTVFDEAIIAILT  184 (185)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHC
T ss_pred             ecCCCCcCHHHHHHHHHHHHcC
Confidence            9999999999999999998864

>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=100.00  E-value=2.3e-37  Score=245.78  Aligned_cols=167  Identities=16%  Similarity=0.217  Sum_probs=147.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|+++.|...+.+|.+ ++..+.+.+++..+.+.+||++|++++..++..+++++|++
T Consensus         3 ~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~   81 (173)
T d2fn4a1           3 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGF   81 (173)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEE
T ss_pred             CCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeeeeeeccccccccccccccchhhccceee
Confidence            44569999999999999999999999999888888754 66678899999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHh-C-CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKC-N-QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~-~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+|||+++.+||+.+..|+..+.+. . .+.|.||||||+||.     ..+....++++.+++.++++|++|||++|.||
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv  156 (173)
T d2fn4a1          82 LLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLE-----SQRQVPRSEASAFGASHHVAYFEASAKLRLNV  156 (173)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEECBTTTTBSH
T ss_pred             eeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechh-----hccccchhhhhHHHHhcCCEEEEEeCCCCcCH
Confidence            9999999999999999999998765 3 344557999999962     22344578899999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCc
Q 041042          238 NKILKFITAKLFDIP  252 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~  252 (268)
                      +++|+.|++.+.+.+
T Consensus       157 ~e~f~~l~~~i~k~~  171 (173)
T d2fn4a1         157 DEAFEQLVRAVRKYQ  171 (173)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999886644

>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=100.00  E-value=3e-37  Score=244.06  Aligned_cols=163  Identities=17%  Similarity=0.225  Sum_probs=143.4

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+|+|++|||||||+++|+++.|...+.+|++.++. +.+.+++..+.+++||++|++++..++..+++++|++++
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~-~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCccccccc-cccccccccccccccccccccchhhhhhhcccccceeEE
Confidence            4689999999999999999999999999999999987664 678899999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||++|.+||+.+..|++++.+..  ++.|.+|||||+|+.     +.+.+..++++++++.++++|+||||++|.||++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e  156 (168)
T d1u8za_          82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE-----DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDK  156 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGG-----GGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHH
T ss_pred             EeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEecccccc-----ccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHH
Confidence            999999999999999999988763  344557999999962     2334558899999999999999999999999999


Q ss_pred             HHHHHHHHHhc
Q 041042          240 ILKFITAKLFD  250 (268)
Q Consensus       240 ~f~~l~~~i~~  250 (268)
                      +|++|++.+..
T Consensus       157 ~f~~l~~~i~~  167 (168)
T d1u8za_         157 VFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHC
Confidence            99999998764

>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=100.00  E-value=4.9e-37  Score=242.35  Aligned_cols=162  Identities=17%  Similarity=0.170  Sum_probs=145.3

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +.+||+|+|++|||||||+++|+++.|...+.+|++.++ .+.+.+++..+.+.+||++|++.+..++..+++++|++|+
T Consensus         3 k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (167)
T d1xtqa1           3 KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYIL   81 (167)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEE
T ss_pred             cceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhhh
Confidence            468999999999999999999999999999999999876 4778899999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh-CC-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKC-NQ-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~-~~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||+++++||+.+..|+..+.+. .. +.|.+|||||+||.     ..+.+..+++++++++++++|+||||++|.||++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~-----~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~  156 (167)
T d1xtqa1          82 VYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLH-----MERVISYEEGKALAESWNAAFLESSAKENQTAVD  156 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHH
T ss_pred             hcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccc-----cccchhHHHHHHHHHHcCCEEEEEecCCCCCHHH
Confidence            99999999999999999998765 33 34557999999972     2234558899999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 041042          240 ILKFITAKLF  249 (268)
Q Consensus       240 ~f~~l~~~i~  249 (268)
                      +|+.|++.+.
T Consensus       157 ~f~~li~~~~  166 (167)
T d1xtqa1         157 VFRRIILEAE  166 (167)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999998774

>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=100.00  E-value=1.6e-38  Score=251.91  Aligned_cols=164  Identities=23%  Similarity=0.344  Sum_probs=144.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|+++.|...+.+|+|.++..+.+..++..+.+.+|||+|++.+..++..+++++|++++
T Consensus         2 ~~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1i2ma_           2 VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAII   81 (170)
T ss_dssp             EEEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhh
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |||+++++||+++..|+..+.+..++.|.+|||||+||..      .. ..+++..+++.++++|+||||++|.||+++|
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~~~piilvgnK~Dl~~------~~-~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f  154 (170)
T d1i2ma_          82 MFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKD------RK-VKAKSIVFHRKKNLQYYDISAKSNYNFEKPF  154 (170)
T ss_dssp             EEETTSGGGGTTHHHHHHHHHHHHCSCCEEEEEECCCCSC------SC-CTTTSHHHHSSCSSEEEEEBTTTTBTTTHHH
T ss_pred             ccccccccccchhHHHHHHHhhccCCCceeeecchhhhhh------hh-hhhHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            9999999999999999999988877777789999999731      11 2234567888999999999999999999999


Q ss_pred             HHHHHHHhcCc
Q 041042          242 KFITAKLFDIP  252 (268)
Q Consensus       242 ~~l~~~i~~~~  252 (268)
                      ++|++.+++.+
T Consensus       155 ~~l~~~l~~~~  165 (170)
T d1i2ma_         155 LWLARKLIGDP  165 (170)
T ss_dssp             HHHHHHHHTCT
T ss_pred             HHHHHHHccCC
Confidence            99999998654

>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=100.00  E-value=3.9e-37  Score=242.15  Aligned_cols=162  Identities=22%  Similarity=0.433  Sum_probs=147.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      |||+++|++|||||||+++|.+++|...+.++++.+........++..+.+.+||++|++.+..++..++++++++++||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   80 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY   80 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEee
Confidence            69999999999999999999999999999999999988888888999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKILK  242 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      |+++..||+++..|+..+.......+| +|||||+|+.     +.+.+..+++.+++++++++|+||||++|.||+++|+
T Consensus        81 d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~  155 (164)
T d1yzqa1          81 DITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA-----DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFR  155 (164)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             ccccccchhhhHhhHHHHHHhcCCCceEEEEecccchh-----hhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHH
Confidence            999999999999999998877655555 6999999972     2334457899999999999999999999999999999


Q ss_pred             HHHHHHhc
Q 041042          243 FITAKLFD  250 (268)
Q Consensus       243 ~l~~~i~~  250 (268)
                      +|++++..
T Consensus       156 ~i~~~l~g  163 (164)
T d1yzqa1         156 RVAAALPG  163 (164)
T ss_dssp             HHHHHSCC
T ss_pred             HHHHhhCC
Confidence            99998753

>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=100.00  E-value=7.4e-37  Score=241.72  Aligned_cols=161  Identities=18%  Similarity=0.244  Sum_probs=128.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      |||+++|++|||||||+++|.+..+. .+.++.+ +.+.+.+.+++..+.+.+||++|++.+..++..|++++|++|+||
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~-~~~~~~~-~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~   79 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAG-HTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVY   79 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------C-EEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccC-CcCCeee-eeecceeeccccccceeeeecccccccceecccchhhhhhhceec
Confidence            89999999999999999999998764 3445544 445578889999999999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhCC-C-CceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCNQ-T-AIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~~-~-~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |+++++||+++..|+.++..... . .|.+|||||+||.     ..+.+..++++++++.++++|+||||++|.||+++|
T Consensus        80 d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f  154 (168)
T d2gjsa1          80 SVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV-----RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALF  154 (168)
T ss_dssp             ETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHH
T ss_pred             cccccccccccccccchhhcccccccceEEEeecccchh-----hhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHH
Confidence            99999999999999999987643 3 3447999999972     223455888999999999999999999999999999


Q ss_pred             HHHHHHHhcC
Q 041042          242 KFITAKLFDI  251 (268)
Q Consensus       242 ~~l~~~i~~~  251 (268)
                      +.|++.+..+
T Consensus       155 ~~l~~~i~~~  164 (168)
T d2gjsa1         155 EGVVRQIRLR  164 (168)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999987654

>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=100.00  E-value=5.3e-37  Score=242.99  Aligned_cols=164  Identities=17%  Similarity=0.245  Sum_probs=144.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||+++|+++.|.+.+.+|++..+ .....+++..+.+.+||++|++.|..++..+++++|++|+|
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv   80 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILV   80 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceeccccccccccccccccccccceeEEEEE
Confidence            58999999999999999999999999999999998655 45678899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC---CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN---QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~---~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      ||+++++||+.+..|+..+.+..   ...|.+|||||+|+.     ..+.+..++++++++.++++|+||||++|.||++
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~-----~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e  155 (171)
T d2erxa1          81 YSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES-----PSREVQSSEAEALARTWKCAFMETSAKLNHNVKE  155 (171)
T ss_dssp             EETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGG-----GGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHH
T ss_pred             eecccccchhcccchhhhhhhhhccCCCCcEEEEeeccccc-----ccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHH
Confidence            99999999999999998886642   344557999999962     2234557889999999999999999999999999


Q ss_pred             HHHHHHHHHhcCc
Q 041042          240 ILKFITAKLFDIP  252 (268)
Q Consensus       240 ~f~~l~~~i~~~~  252 (268)
                      +|+.|++.+.++.
T Consensus       156 ~f~~l~~~~~~~~  168 (171)
T d2erxa1         156 LFQELLNLEKRRT  168 (171)
T ss_dssp             HHHHHHHTCCSSC
T ss_pred             HHHHHHHHHHHhh
Confidence            9999998765543

>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=100.00  E-value=9e-37  Score=240.81  Aligned_cols=163  Identities=16%  Similarity=0.234  Sum_probs=145.3

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ++++||+++|++|||||||+++|+++.|...+.+|++ ++..+.+.+++..+.+++||++|++.+..++..+++++|+++
T Consensus         1 mk~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~i   79 (167)
T d1kaoa_           1 MREYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFI   79 (167)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEE
T ss_pred             CceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccchHHHhhccccee
Confidence            3579999999999999999999999999999999887 556678889999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      +|||+++++||.++..|+..+....  ++.|++|||||+|+.     ..+.+..++++.++++++++|+||||++|.||+
T Consensus        80 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~  154 (167)
T d1kaoa_          80 LVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLE-----SEREVSSSEGRALAEEWGCPFMETSAKSKTMVD  154 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGG-----GGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHH
T ss_pred             eeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchh-----hcccchHHHHHHHHHHcCCeEEEECCCCCcCHH
Confidence            9999999999999999999987754  344557999999962     223445788999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q 041042          239 KILKFITAKLF  249 (268)
Q Consensus       239 ~~f~~l~~~i~  249 (268)
                      ++|++|++++.
T Consensus       155 e~f~~i~~~i~  165 (167)
T d1kaoa_         155 ELFAEIVRQMN  165 (167)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHc
Confidence            99999998764

>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=100.00  E-value=2.5e-36  Score=240.57  Aligned_cols=167  Identities=19%  Similarity=0.247  Sum_probs=142.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      +.||+|+|++|||||||+++|.++.|.+.+.+|++ +...+...+++..+.+++||++|++.|..++..|++++|++|+|
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMC   80 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccchhhcccchhhhhh
Confidence            58999999999999999999999999999999987 44557778899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHH-HHHHHHHhCCCCceEEEEeCCCCCCCCC-------ccchhchHHHHHHHHHHhC-CeEEEEcCCC
Q 041042          163 FDLTSRCTLKSVIR-WYQQARKCNQTAIPIIIGTKFDDFIQLP-------IDLQWTIASQARAYAKALN-ATLFFSSATY  233 (268)
Q Consensus       163 ~D~~~~~s~~~~~~-~~~~i~~~~~~~~~ilvgnK~Dl~~~~~-------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~  233 (268)
                      ||+++++||+++.. |...+....++.|.+|||||+|+.....       ...+.+..++++.++++++ ++|+||||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt  160 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKT  160 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTT
T ss_pred             cccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCC
Confidence            99999999999875 4555666666666689999999732100       0112244788999999998 5899999999


Q ss_pred             CcCHHHHHHHHHHHHhc
Q 041042          234 NINVNKILKFITAKLFD  250 (268)
Q Consensus       234 ~~~i~~~f~~l~~~i~~  250 (268)
                      |.||+++|+.+++.+++
T Consensus       161 ~~gi~e~F~~i~~~~l~  177 (177)
T d1kmqa_         161 KDGVREVFEMATRAALQ  177 (177)
T ss_dssp             CTTHHHHHHHHHHHHHC
T ss_pred             CcCHHHHHHHHHHHHhC
Confidence            99999999999998874

>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=100.00  E-value=1.9e-36  Score=239.00  Aligned_cols=163  Identities=19%  Similarity=0.235  Sum_probs=143.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ++.+||+++|++|||||||+++|+.+.|...+.+|++..+ ...+.+++..+.+++||++|++.+..+++.|++++|++|
T Consensus         1 mr~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   79 (167)
T d1c1ya_           1 MREYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFA   79 (167)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEE
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeE
Confidence            3579999999999999999999999999999999998665 467788999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHh-C-CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh-CCeEEEEcCCCCcCH
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKC-N-QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-NATLFFSSATYNINV  237 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~-~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~i  237 (268)
                      +|||+++++||+++..|+..+.+. . ++.|.||||||+|+.     .......+++..+++++ +++|+||||++|.||
T Consensus        80 lv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv  154 (167)
T d1c1ya_          80 LVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE-----DERVVGKEQGQNLARQWCNCAFLESSAKSKINV  154 (167)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSH
T ss_pred             EeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcc-----cccccchhHHHHHHHHhCCCEEEEEcCCCCcCH
Confidence            999999999999999999998765 3 344557999999972     22344478888999885 789999999999999


Q ss_pred             HHHHHHHHHHHh
Q 041042          238 NKILKFITAKLF  249 (268)
Q Consensus       238 ~~~f~~l~~~i~  249 (268)
                      +++|++|++.+.
T Consensus       155 ~e~F~~l~~~i~  166 (167)
T d1c1ya_         155 NEIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc
Confidence            999999998875

>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=100.00  E-value=2.2e-36  Score=239.30  Aligned_cols=165  Identities=19%  Similarity=0.380  Sum_probs=148.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|++++|...+.+|+|.++..+.+..++..+.+++||++|++.+..++..+++++|++++
T Consensus         2 ~~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1ek0a_           2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             cEEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEE
Confidence            35899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCcc-chhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPID-LQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||+++++||+++..|+..+........+ ++|+||+|+.   ... .+.+..+++++++++++++|+||||++|.||++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~---~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e  158 (170)
T d1ek0a_          82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDML---QEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVND  158 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG---GSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHH
T ss_pred             EEeCCcccchhhhhhhhhhhccccccccceeeeecccccc---cccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHH
Confidence            99999999999999999888776655455 6999999973   222 234558899999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 041042          240 ILKFITAKLF  249 (268)
Q Consensus       240 ~f~~l~~~i~  249 (268)
                      +|..|++++.
T Consensus       159 ~F~~i~~~i~  168 (170)
T d1ek0a_         159 VFLGIGEKIP  168 (170)
T ss_dssp             HHHHHHTTSC
T ss_pred             HHHHHHHHhc
Confidence            9999987654

>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=100.00  E-value=1.2e-36  Score=240.47  Aligned_cols=162  Identities=14%  Similarity=0.202  Sum_probs=140.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++||+++|++|||||||+++|+++.|.+.+.||++.++. +.+..++..+.+++||++|++.+. ....++++++++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~-~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceecccc-ccccccccceEEEEeecccccccc-cchhhhcccccceee
Confidence            489999999999999999999999999999999998875 555679999999999999998874 566789999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCc-CHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNI-NVNK  239 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~i~~  239 (268)
                      ||+++++||+.+..|+..+...  .++.|.+|||||+||.     ..+.+..+++++++++++++|+||||++|. ||++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~-----~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e  154 (168)
T d2atva1          80 YDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLD-----HSRQVSTEEGEKLATELACAFYECSACTGEGNITE  154 (168)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGG-----GGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHH
T ss_pred             cccCCccchhhhhhhcccccccccccCcceeeeccchhhh-----hhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHH
Confidence            9999999999999988766554  3345557999999971     223456899999999999999999999998 5999


Q ss_pred             HHHHHHHHHhcC
Q 041042          240 ILKFITAKLFDI  251 (268)
Q Consensus       240 ~f~~l~~~i~~~  251 (268)
                      +|.+|++.+.++
T Consensus       155 ~F~~l~~~i~~~  166 (168)
T d2atva1         155 IFYELCREVRRR  166 (168)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988654

>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=100.00  E-value=4.2e-36  Score=237.70  Aligned_cols=166  Identities=20%  Similarity=0.378  Sum_probs=150.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ..-.+||+++|++|||||||+++|+++.|.+.+.+|.+.++.......++..+.+.+||++|++.|..++..++++++++
T Consensus         3 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~   82 (170)
T d1r2qa_           3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             ceeEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceE
Confidence            34579999999999999999999999999999999999999888889999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      ++|||+++.++|+.+..|+..+.+.....+| +|||||+|+.     ..+.+..++++++++.++++|+||||++|.||+
T Consensus        83 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~-----~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~  157 (170)
T d1r2qa_          83 IVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLA-----NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVN  157 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHH
T ss_pred             EEEeccchhhHHHHHHHHhhhhhhccCCCceEEeeccccccc-----ccccccHHHHHHHHHhcCCEEEEeeCCCCCCHH
Confidence            9999999999999999999998776554444 6999999962     233455889999999999999999999999999


Q ss_pred             HHHHHHHHHHhc
Q 041042          239 KILKFITAKLFD  250 (268)
Q Consensus       239 ~~f~~l~~~i~~  250 (268)
                      ++|+.|++.+.+
T Consensus       158 e~f~~l~~~i~~  169 (170)
T d1r2qa_         158 EIFMAIAKKLPK  169 (170)
T ss_dssp             HHHHHHHHTSCC
T ss_pred             HHHHHHHHHHhh
Confidence            999999998765

>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=100.00  E-value=4.2e-36  Score=236.78  Aligned_cols=162  Identities=13%  Similarity=0.208  Sum_probs=145.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      .++||+++|++|||||||+++|+++.|...+.+|++.++. ..+..++..+.+.+||++|++.+...+..+++.++++++
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~ii   80 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   80 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeec-cceeeeceeeeeeeeeccCccccccchhhhhhcccccce
Confidence            5699999999999999999999999999999999987765 456788999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNK  239 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  239 (268)
                      |||++++.+|+.+..|+..+.+..  ++.|.||||||+|+      ..+.+..++++++++.++++|++|||++|.||++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl------~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e  154 (166)
T d1ctqa_          81 VFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL------AARTVESRQAQDLARSYGIPYIETSAKTRQGVED  154 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTC------SCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHH
T ss_pred             eecccccccHHHHHHHHHHHHHhcCCCCCeEEEEeccccc------ccccccHHHHHHHHHHhCCeEEEEcCCCCcCHHH
Confidence            999999999999999999988763  34455799999997      2344557889999999999999999999999999


Q ss_pred             HHHHHHHHHhc
Q 041042          240 ILKFITAKLFD  250 (268)
Q Consensus       240 ~f~~l~~~i~~  250 (268)
                      +|++|++.+.+
T Consensus       155 ~f~~i~~~i~~  165 (166)
T d1ctqa_         155 AFYTLVREIRQ  165 (166)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999998865

>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=100.00  E-value=3.1e-36  Score=238.71  Aligned_cols=162  Identities=15%  Similarity=0.230  Sum_probs=140.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+|+|++|||||||+++|+++.|...+.+|.+ +...+.+.+++..+.+++||++|++.+...+..+++.+|++++|
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv   83 (171)
T d2erya1           5 KYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLV   83 (171)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEEEe
Confidence            48999999999999999999999999999999877 56668888999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ||+++++||+.+..|+..+.+.  ....|.||||||+|+.     ..+.+..+++.+++++++++|+||||++|.||+++
T Consensus        84 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~  158 (171)
T d2erya1          84 FSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLD-----HQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQA  158 (171)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCT-----TSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             eccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchh-----hhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHH
Confidence            9999999999999999887665  2344557999999962     22345578999999999999999999999999999


Q ss_pred             HHHHHHHHhc
Q 041042          241 LKFITAKLFD  250 (268)
Q Consensus       241 f~~l~~~i~~  250 (268)
                      |.+|++.+.+
T Consensus       159 f~~l~~~i~k  168 (171)
T d2erya1         159 FHELVRVIRK  168 (171)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998854

>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=100.00  E-value=4.8e-36  Score=238.06  Aligned_cols=165  Identities=18%  Similarity=0.333  Sum_probs=145.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +.+||+|+|++|||||||+++|.++++.+.+.++.+.+.........+..+.+.+||++|++.+..++..+++++|++|+
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL   81 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEE
Confidence            45899999999999999999999999999999988888888888889999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      |||+++++||+.+..|+..+.+.....+| +|||||+|+.     ..+....+++..+++.++++|+||||++|.||+++
T Consensus        82 v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~-----~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~  156 (173)
T d2a5ja1          82 VYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE-----SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEA  156 (173)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHH
T ss_pred             EEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchh-----hhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHH
Confidence            99999999999999999999887655555 6999999962     22334478899999999999999999999999999


Q ss_pred             HHHHHHHHhcC
Q 041042          241 LKFITAKLFDI  251 (268)
Q Consensus       241 f~~l~~~i~~~  251 (268)
                      |.+|++.+.++
T Consensus       157 f~~i~~~i~~~  167 (173)
T d2a5ja1         157 FINTAKEIYRK  167 (173)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998754

>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=100.00  E-value=9.9e-36  Score=239.99  Aligned_cols=171  Identities=16%  Similarity=0.213  Sum_probs=146.0

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      ..+||+++|++|||||||+++|+++.|...+.+|++. .......+++..+.+++||++|+++|..++..+++++|++++
T Consensus         2 ~~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   80 (191)
T d2ngra_           2 QTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFD-NYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLV   80 (191)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceee-ecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeec
Confidence            4699999999999999999999999999999999985 455777789999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHH-HHHHHHHhCCCCceEEEEeCCCCCCCCC-------ccchhchHHHHHHHHHHh-CCeEEEEcCC
Q 041042          162 MFDLTSRCTLKSVIR-WYQQARKCNQTAIPIIIGTKFDDFIQLP-------IDLQWTIASQARAYAKAL-NATLFFSSAT  232 (268)
Q Consensus       162 v~D~~~~~s~~~~~~-~~~~i~~~~~~~~~ilvgnK~Dl~~~~~-------~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~  232 (268)
                      |||+++++||+++.. |...+....++.|.++||||+||.....       .....+..++++++++++ +++|+||||+
T Consensus        81 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk  160 (191)
T d2ngra_          81 CFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSAL  160 (191)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTT
T ss_pred             ccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCC
Confidence            999999999999985 5555666666666679999999731100       011235588999999996 5799999999


Q ss_pred             CCcCHHHHHHHHHHHHhcCcc
Q 041042          233 YNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       233 ~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      +|.||+++|+.+++.+++.+.
T Consensus       161 ~~~~V~e~f~~l~~~~~~~~~  181 (191)
T d2ngra_         161 TQKGLKNVFDEAILAALEPPE  181 (191)
T ss_dssp             TCTTHHHHHHHHHHHHTSCCS
T ss_pred             CCcCHHHHHHHHHHHHhcCcC
Confidence            999999999999999988764

>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=100.00  E-value=1.1e-35  Score=240.29  Aligned_cols=168  Identities=19%  Similarity=0.327  Sum_probs=152.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|+++.+...+.+|.+.++....+.+++..+.+.+|||+|+++|..++..++++|+++
T Consensus         3 ~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~   82 (194)
T d2bcgy1           3 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGI   82 (194)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEE
Confidence            56679999999999999999999999999999999999999988999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||+++.++|..+..|+..+.+......| +|||||+|+.     .......++...+++..++.|++|||++|.||+
T Consensus        83 i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~-----~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~  157 (194)
T d2bcgy1          83 IIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLK-----DKRVVEYDVAKEFADANKMPFLETSALDSTNVE  157 (194)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCT-----TTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHH
T ss_pred             EEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccc-----cccchhHHHHhhhhhccCcceEEEecCcCccHH
Confidence            9999999999999999999988876655555 6999999973     223445788899999999999999999999999


Q ss_pred             HHHHHHHHHHhcCc
Q 041042          239 KILKFITAKLFDIP  252 (268)
Q Consensus       239 ~~f~~l~~~i~~~~  252 (268)
                      ++|++|++.+.+..
T Consensus       158 e~f~~l~~~i~~~~  171 (194)
T d2bcgy1         158 DAFLTMARQIKESM  171 (194)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999887655

>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=100.00  E-value=9.7e-36  Score=238.40  Aligned_cols=171  Identities=21%  Similarity=0.295  Sum_probs=146.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      +..+||+|+|++|||||||+++|+++.|...+.+|++ +...+.+.+++..+.+.+||++|++.|..++..+++++|+++
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   81 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSC-CEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCccccccee-eceeeeeeccCcceEEEeecccccccchhhhhhcccccceee
Confidence            4579999999999999999999999999999999987 455677888999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHH-HHHHHHHhCCCCceEEEEeCCCCCCCCC-------ccchhchHHHHHHHHHHhC-CeEEEEcC
Q 041042          161 FMFDLTSRCTLKSVIR-WYQQARKCNQTAIPIIIGTKFDDFIQLP-------IDLQWTIASQARAYAKALN-ATLFFSSA  231 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~-~~~~i~~~~~~~~~ilvgnK~Dl~~~~~-------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa  231 (268)
                      +|||+++++||+++.. |...+..+..+.|+||||||+|+.....       .........++..++++++ ++|+||||
T Consensus        82 lv~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SA  161 (183)
T d1mh1a_          82 ICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  161 (183)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             eeeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCC
Confidence            9999999999999975 6666777776777789999999621100       0011233668888999887 79999999


Q ss_pred             CCCcCHHHHHHHHHHHHhcCc
Q 041042          232 TYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      ++|.||+++|+.|++.+++.+
T Consensus       162 k~~~~V~e~F~~l~~~il~pp  182 (183)
T d1mh1a_         162 LTQRGLKTVFDEAIRAVLCPP  182 (183)
T ss_dssp             TTCTTHHHHHHHHHHHHSCCC
T ss_pred             CCCcCHHHHHHHHHHHHcCCC
Confidence            999999999999999998654

>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=100.00  E-value=6.5e-36  Score=235.63  Aligned_cols=163  Identities=23%  Similarity=0.432  Sum_probs=143.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||+++|++++|...+.+|++.++..+.+.+++..+.+.+|||+|++.|..++..++++++++|+|
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEE
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      ||.++++||+.+..|+..+........+ +++++|.|+      ..+....++++++++.++++|++|||++|.||+++|
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f  155 (166)
T d1g16a_          82 YDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM------ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIF  155 (166)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC------TTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHH
T ss_pred             EECCCccCHHHHHhhhhhhhccccCcceeeeecchhhh------hhhhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHH
Confidence            9999999999999999888888766555 689999996      334455789999999999999999999999999999


Q ss_pred             HHHHHHHhcC
Q 041042          242 KFITAKLFDI  251 (268)
Q Consensus       242 ~~l~~~i~~~  251 (268)
                      ++|++.+.++
T Consensus       156 ~~l~~~i~~k  165 (166)
T d1g16a_         156 FTLAKLIQEK  165 (166)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhc
Confidence            9999988654

>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=100.00  E-value=9.7e-36  Score=236.37  Aligned_cols=167  Identities=20%  Similarity=0.306  Sum_probs=150.6

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.++.|...+.+|.+.+.....+..++..+.+++|||+|++++..+++.++++++++
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~   81 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGA   81 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEE
Confidence            34569999999999999999999999999999999999888888888899999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||.++.++|..+..|+..+.......+| +|||||+|+.     .......+++.++++.++++|++|||++|.||+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~-----~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~  156 (174)
T d2bmea1          82 LLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLD-----ADREVTFLEASRFAQENELMFLETSALTGENVE  156 (174)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHH
T ss_pred             EEEEecccchhHHHHhhhhcccccccCCceEEEEEEeccccc-----chhchhhhHHHHHHHhCCCEEEEeeCCCCcCHH
Confidence            9999999999999999999998887655555 6999999962     233444778899999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|+++++.++++
T Consensus       157 e~f~~l~~~i~~~  169 (174)
T d2bmea1         157 EAFVQCARKILNK  169 (174)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998755

>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=100.00  E-value=3.1e-35  Score=234.24  Aligned_cols=168  Identities=20%  Similarity=0.372  Sum_probs=152.8

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+|+|++|||||||+++|.+++|...+.++.+..+..+.+.+++..+.+.+|||+|++++..++..+++++|++
T Consensus         4 ~~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~i   83 (177)
T d1x3sa1           4 VLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGV   83 (177)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEE
T ss_pred             ccceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEE
Confidence            45679999999999999999999999999999999999888888999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCC--CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQ--TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~--~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      |+|||+++..+|+.+..|+.++.+...  ..++++++||.|+      ..+.+..+++.++++.++++|++|||++|+||
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~------~~~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv  157 (177)
T d1x3sa1          84 ILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDK------ENREVDRNEGLKFARKHSMLFIEASAKTCDGV  157 (177)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTS------SSCCSCHHHHHHHHHHTTCEEEECCTTTCTTH
T ss_pred             EEEEECCCccccccchhhhhhhcccccccceeeEEEeecccc------ccccccHHHHHHHHHHCCCEEEEEeCCCCCCH
Confidence            999999999999999999999977643  2344699999996      33455588899999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCcc
Q 041042          238 NKILKFITAKLFDIPW  253 (268)
Q Consensus       238 ~~~f~~l~~~i~~~~~  253 (268)
                      +++|++|++.+++.+.
T Consensus       158 ~e~f~~l~~~l~~~p~  173 (177)
T d1x3sa1         158 QCAFEELVEKIIQTPG  173 (177)
T ss_dssp             HHHHHHHHHHHHTSGG
T ss_pred             HHHHHHHHHHHccCcc
Confidence            9999999999998874

>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=100.00  E-value=2.1e-35  Score=234.72  Aligned_cols=165  Identities=24%  Similarity=0.453  Sum_probs=146.4

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +.+||+|+|++|||||||+++|.++.+...+.++.+.+.....+.+++..+.+.+||++|++.|..++..++++++++|+
T Consensus         3 ~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~   82 (175)
T d2f9la1           3 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALL   82 (175)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEE
Confidence            56999999999999999999999999999999999888888899999999999999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      |||+++++||..+.+|+..+..+....+| +|||||+|+.     +.+....+....+++.++.+|++|||++|.||+++
T Consensus        83 v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~-----~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~  157 (175)
T d2f9la1          83 VYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLR-----HLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEA  157 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeeccc-----ccccchHHHHHHhhcccCceEEEEecCCCcCHHHH
Confidence            99999999999999999999888765555 6999999972     22334467778889999999999999999999999


Q ss_pred             HHHHHHHHhcC
Q 041042          241 LKFITAKLFDI  251 (268)
Q Consensus       241 f~~l~~~i~~~  251 (268)
                      |+++++.+.+.
T Consensus       158 f~~l~~~i~~~  168 (175)
T d2f9la1         158 FKNILTEIYRI  168 (175)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988653

>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=100.00  E-value=5.5e-35  Score=231.21  Aligned_cols=165  Identities=22%  Similarity=0.397  Sum_probs=138.1

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCC-CCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQG-GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~  158 (268)
                      ....+||+|+|++|||||||+++|++++|... +.++++.++....+.+++..+++++|||+|++.+..++..+++++|+
T Consensus         3 ~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~   82 (170)
T d2g6ba1           3 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHA   82 (170)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSE
T ss_pred             CceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCce
Confidence            45679999999999999999999999987554 45667888888889999999999999999999999999999999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      +++|||+++.+||..+..|+..+....... ++++|+||+|+.     ....+..+++..+++.++++|++|||++|.||
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~-----~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi  157 (170)
T d2g6ba1          83 LLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSA-----HERVVKREDGEKLAKEYGLPFMETSAKTGLNV  157 (170)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTT-----SCCCSCHHHHHHHHHHHTCCEEECCTTTCTTH
T ss_pred             eEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechh-----hcccccHHHHHHHHHHcCCEEEEEeCCCCcCH
Confidence            999999999999999999988887765544 447999999962     22344578899999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 041042          238 NKILKFITAKLF  249 (268)
Q Consensus       238 ~~~f~~l~~~i~  249 (268)
                      +++|++|++.+.
T Consensus       158 ~e~f~~l~~~i~  169 (170)
T d2g6ba1         158 DLAFTAIAKELK  169 (170)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC
Confidence            999999998875

>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=100.00  E-value=9.7e-36  Score=236.29  Aligned_cols=167  Identities=20%  Similarity=0.334  Sum_probs=120.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+...+.+|++.++..+.+.+++..+.+++|||+|++.|..++..+++++|++
T Consensus         3 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~   82 (173)
T d2fu5c1           3 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   82 (173)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEE
Confidence            34569999999999999999999999999888999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhCCCC-ceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCNQTA-IPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|||++++.||+.+..|+..+....... ++++||||.|+.     ..+....+++..+++..+++|++|||++|+||+
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~-----~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~  157 (173)
T d2fu5c1          83 MLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVN-----DKRQVSKERGEKLALDYGIKFMETSAKANINVE  157 (173)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CC-----SCCCSCHHHHHHHHHHHTCEEEECCC---CCHH
T ss_pred             EEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccch-----hhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHH
Confidence            99999999999999999999997765544 447999999963     223344677889999999999999999999999


Q ss_pred             HHHHHHHHHHhcC
Q 041042          239 KILKFITAKLFDI  251 (268)
Q Consensus       239 ~~f~~l~~~i~~~  251 (268)
                      ++|++|++.+..+
T Consensus       158 e~f~~l~~~i~~k  170 (173)
T d2fu5c1         158 NAFFTLARDIKAK  170 (173)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988543

>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=100.00  E-value=3.6e-35  Score=235.15  Aligned_cols=177  Identities=23%  Similarity=0.352  Sum_probs=155.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+|+|++|||||||+++|+++.|...+.+|++.++..+.....+..+.+.+||++|++.+...+..++..+|++++|
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   81 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLV   81 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEe
Confidence            48999999999999999999999999999999999999989999999999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHhC----C-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-hCCeEEEEcCCCCcC
Q 041042          163 FDLTSRCTLKSVIRWYQQARKCN----Q-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-LNATLFFSSATYNIN  236 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~~----~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~  236 (268)
                      ||.++..+|+.+..|++++....    . ..|.+|||||+||      ..+.+..++...++.. .+++|++|||++|.|
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl------~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~g  155 (184)
T d1vg8a_          82 FDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDL------ENRQVATKRAQAWCYSKNNIPYFETSAKEAIN  155 (184)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTS------SCCCSCHHHHHHHHHHTTSCCEEECBTTTTBS
T ss_pred             ecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecc------cccchhHHHHHHHHHHhcCCeEEEEcCCCCcC
Confidence            99999999999999999887752    1 3345799999997      2344556667777654 589999999999999


Q ss_pred             HHHHHHHHHHHHhcCccchhcccCCCCCC
Q 041042          237 VNKILKFITAKLFDIPWTLERNLTIGEPI  265 (268)
Q Consensus       237 i~~~f~~l~~~i~~~~~~~~~~~~~~~~i  265 (268)
                      |+++|++|++.+++++...+......+||
T Consensus       156 I~e~f~~l~~~i~~~~~~~~~~~~~~~~~  184 (184)
T d1vg8a_         156 VEQAFQTIARNALKQETEVELYNEFPEPI  184 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHHHHhccccccccCCCCCCC
Confidence            99999999999999877666666666665

>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=100.00  E-value=9e-36  Score=239.07  Aligned_cols=167  Identities=24%  Similarity=0.367  Sum_probs=146.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECC----------eEEEEEEEeCCCccccccch
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRG----------ARISYSIWEVTGDAKAQDHL  149 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~----------~~~~l~i~Dt~G~~~~~~~~  149 (268)
                      ....+||+|+|++|||||||+++|+++.|...+.+|.+.++..+.+.+++          ..+.+.+|||+|++.|..++
T Consensus         2 ~d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~   81 (186)
T d2f7sa1           2 YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLT   81 (186)
T ss_dssp             CSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHH
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHH
Confidence            34579999999999999999999999999999999888888877776643          35789999999999999999


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhC-CCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEE
Q 041042          150 PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCN-QTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLF  227 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~-~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (268)
                      ..+++++|++|+|||+++..+|+.+..|+..+.... ...+| +|||||+|+.     ..+.+..+++.+++++++++|+
T Consensus        82 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~-----~~~~v~~~e~~~~~~~~~~~~~  156 (186)
T d2f7sa1          82 TAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLP-----DQREVNERQARELADKYGIPYF  156 (186)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCCEE
T ss_pred             HHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccch-----hhhcchHHHHHHHHHHcCCEEE
Confidence            999999999999999999999999999998876653 33444 6999999972     2344558889999999999999


Q ss_pred             EEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          228 FSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       228 ~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      +|||++|.||+++|++|++.+.++
T Consensus       157 e~Sak~~~~i~e~f~~l~~~i~~k  180 (186)
T d2f7sa1         157 ETSAATGQNVEKAVETLLDLIMKR  180 (186)
T ss_dssp             EEBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999988754

>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=100.00  E-value=2.4e-34  Score=228.31  Aligned_cols=164  Identities=20%  Similarity=0.333  Sum_probs=143.7

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+|+|++|||||||+++|+++.|...+.+|++..+..+.+..++..+.+.+||++|+..+...+..++..+++++
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i   83 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCL   83 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEE
Confidence            34689999999999999999999999999999999999998889999999999999999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhC-----CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh-CCeEEEEcCCCC
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCN-----QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL-NATLFFSSATYN  234 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~-----~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~  234 (268)
                      +|||.+++.||+.+..|++++.+..     .+.|+||||||+|+      ..+.+..+++++++++. .++|+||||++|
T Consensus        84 ~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl------~~~~v~~~~~~~~~~~~~~~~~~e~Sak~~  157 (174)
T d1wmsa_          84 LTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDI------SERQVSTEEAQAWCRDNGDYPYFETSAKDA  157 (174)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTC------SSCSSCHHHHHHHHHHTTCCCEEECCTTTC
T ss_pred             EEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccch------hhccCcHHHHHHHHHHcCCCeEEEEcCCCC
Confidence            9999999999999999999887652     23445799999997      23456688999999987 489999999999


Q ss_pred             cCHHHHHHHHHHHHhc
Q 041042          235 INVNKILKFITAKLFD  250 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~  250 (268)
                      .||+++|++|++.++.
T Consensus       158 ~gI~e~f~~l~~~il~  173 (174)
T d1wmsa_         158 TNVAAAFEEAVRRVLA  173 (174)
T ss_dssp             TTHHHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHHHHhc
Confidence            9999999999998864

>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=100.00  E-value=7.8e-35  Score=230.91  Aligned_cols=162  Identities=19%  Similarity=0.267  Sum_probs=136.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCC---CccccccchhhhhcCCcE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVT---GDAKAQDHLPVACKDSIA  158 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~---G~~~~~~~~~~~~~~a~~  158 (268)
                      .|||+++|++|||||||+++|.+..+. ....+|++.++..+.+.+++..+.+.+||++   |+++|  ++..+++++|+
T Consensus         3 ~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~~   80 (172)
T d2g3ya1           3 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDA   80 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCSE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccce
Confidence            589999999999999999999988754 3455678888888999999999999999965   56665  66788999999


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHHhC--CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcC
Q 041042          159 ILFMFDLTSRCTLKSVIRWYQQARKCN--QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNIN  236 (268)
Q Consensus       159 vilv~D~~~~~s~~~~~~~~~~i~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  236 (268)
                      +|+|||+++++||+++..|+..+....  ++.|.||||||+||.     ..+.+..++++++++.++++|+||||++|.|
T Consensus        81 ~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~-----~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~  155 (172)
T d2g3ya1          81 YLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLV-----RCREVSVSEGRACAVVFDCKFIETSAAVQHN  155 (172)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCG-----GGCCSCHHHHHHHHHHHTCEEEECBTTTTBS
T ss_pred             eeeeecccccchhhhhhhhhhhhhhccccCCceEEEEecccccc-----ccccccHHHHHHHHHHcCCeEEEEeCCCCcC
Confidence            999999999999999999999887653  345557999999972     2234557889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcC
Q 041042          237 VNKILKFITAKLFDI  251 (268)
Q Consensus       237 i~~~f~~l~~~i~~~  251 (268)
                      |+++|+.|++.+...
T Consensus       156 i~~~f~~l~~~i~~r  170 (172)
T d2g3ya1         156 VKELFEGIVRQVRLR  170 (172)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHc
Confidence            999999999988643

>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=100.00  E-value=1.4e-34  Score=231.04  Aligned_cols=168  Identities=24%  Similarity=0.276  Sum_probs=142.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++||+++|++|||||||+++|..+.|...+.+|++. ...+.+.+++..+.+++||++|++.+..+++.+++++|++|+|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFE-NYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceee-cccccccccceEEeeccccccccccccccccchhhhhhhhhee
Confidence            589999999999999999999999999999999874 4556778899999999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHH-HHHHHHhCCCCceEEEEeCCCCCCCCC-------ccchhchHHHHHHHHHHhC-CeEEEEcCCC
Q 041042          163 FDLTSRCTLKSVIRW-YQQARKCNQTAIPIIIGTKFDDFIQLP-------IDLQWTIASQARAYAKALN-ATLFFSSATY  233 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~-~~~i~~~~~~~~~ilvgnK~Dl~~~~~-------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~  233 (268)
                      ||+++.+||+.+..| ...+....++.|.||||||+|+.....       .....+..+++..++++++ +.|+||||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~  160 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQ  160 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTT
T ss_pred             eecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCC
Confidence            999999999998865 455566666666679999999631100       0112345888999999987 5899999999


Q ss_pred             CcC-HHHHHHHHHHHHhcC
Q 041042          234 NIN-VNKILKFITAKLFDI  251 (268)
Q Consensus       234 ~~~-i~~~f~~l~~~i~~~  251 (268)
                      |.| |+++|+.+++.++++
T Consensus       161 ~~n~i~~~F~~~~~~~l~k  179 (179)
T d1m7ba_         161 SENSVRDIFHVATLACVNK  179 (179)
T ss_dssp             BHHHHHHHHHHHHHHHHTC
T ss_pred             CCcCHHHHHHHHHHHHhcC
Confidence            985 999999999998764

>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=100.00  E-value=1.5e-34  Score=229.41  Aligned_cols=165  Identities=24%  Similarity=0.387  Sum_probs=129.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEEC-CeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVR-GARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      .+||+++|++|||||||+++|++++|.+.+.+|.+........... ...+.+.+|||+|++.+..++..+++.++++++
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   81 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVL   81 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEE
Confidence            4899999999999999999999999999999988877766655544 455789999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC----C-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-CeEEEEcCCCCc
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN----Q-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-ATLFFSSATYNI  235 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~----~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~  235 (268)
                      |||++++.||+.+..|++++..+.    + ..|++|||||+|+    .+.++.+..++++++++.++ ++|++|||++|.
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl----~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~  157 (175)
T d1ky3a_          82 VYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDA----EESKKIVSEKSAQELAKSLGDIPLFLTSAKNAI  157 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTS----CGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTB
T ss_pred             EeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccch----hhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCc
Confidence            999999999999999999987652    2 3455799999996    33333355788999999986 789999999999


Q ss_pred             CHHHHHHHHHHHHhcC
Q 041042          236 NVNKILKFITAKLFDI  251 (268)
Q Consensus       236 ~i~~~f~~l~~~i~~~  251 (268)
                      ||+++|++|++.++++
T Consensus       158 gv~e~f~~l~~~~l~~  173 (175)
T d1ky3a_         158 NVDTAFEEIARSALQQ  173 (175)
T ss_dssp             SHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhc
Confidence            9999999999988764

>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=100.00  E-value=7.1e-34  Score=223.46  Aligned_cols=158  Identities=20%  Similarity=0.397  Sum_probs=139.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc-chhhhhcCCcEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD-HLPVACKDSIAILF  161 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~-~~~~~~~~a~~vil  161 (268)
                      .+||+++|++|||||||+++|++++|...+.+|.+..+..+...+.+....+.+||++|.+.+.. .++.|++++|++|+
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~il   81 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVF   81 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceEE
Confidence            58999999999999999999999999999999999999889999999999999999999887654 57889999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHhC-C-CCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCC---CcC
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKCN-Q-TAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATY---NIN  236 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~~-~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~~  236 (268)
                      |||++|++||+++..|+.++.++. . +.|.+|||||+||.     ..+.+..+++++++++++++|+||||++   ++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~-----~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~  156 (165)
T d1z06a1          82 VYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR-----SAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDH  156 (165)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCG-----GGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSC
T ss_pred             EEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccch-----hccchhHHHHHHHHHHCCCEEEEEecccCCcCcC
Confidence            999999999999999999998764 2 34446999999972     2234568889999999999999999997   459


Q ss_pred             HHHHHHHHH
Q 041042          237 VNKILKFIT  245 (268)
Q Consensus       237 i~~~f~~l~  245 (268)
                      |+++|++|+
T Consensus       157 V~e~F~~lA  165 (165)
T d1z06a1         157 VEAIFMTLA  165 (165)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhC
Confidence            999999874

>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=100.00  E-value=3.7e-33  Score=221.83  Aligned_cols=162  Identities=21%  Similarity=0.314  Sum_probs=134.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      .+.+||+++|++|||||||+++|+++.|. .+.+|.+..+ .+.+.++++.+.+.+|||+|++.+     .|++++|++|
T Consensus         3 ~p~~ki~vlG~~~vGKTsLi~~~~~~~f~-~~~~t~~~~~-~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~i   75 (175)
T d2bmja1           3 IPELRLGVLGDARSGKSSLIHRFLTGSYQ-VLEKTESEQY-KKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVI   75 (175)
T ss_dssp             CCEEEEEEECCTTTTHHHHHHHHHHSCCC-CCCCSSCEEE-EEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEE
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHhCCCC-CcCCccceeE-EEEeecCceEEEEEEeeccccccc-----ccccccceeE
Confidence            45799999999999999999999999985 4556666554 578889999999999999998764     4889999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHhC---CCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHH-hCCeEEEEcCCCCc
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKCN---QTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKA-LNATLFFSSATYNI  235 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~~---~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~  235 (268)
                      +|||+++++||+++..|+..+....   ...+| +|||||.|+.   ....+.+..++++.++.+ ++++|+||||++|.
T Consensus        76 lVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d---~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~  152 (175)
T d2bmja1          76 FVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRIS---ASSPRVVGDARARALCADMKRCSYYETCATYGL  152 (175)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCC---SSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTB
T ss_pred             EEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcc---hhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCc
Confidence            9999999999999999999987653   34445 5999999962   112233447788889765 57899999999999


Q ss_pred             CHHHHHHHHHHHHhcCc
Q 041042          236 NVNKILKFITAKLFDIP  252 (268)
Q Consensus       236 ~i~~~f~~l~~~i~~~~  252 (268)
                      ||+++|..+++.+...+
T Consensus       153 ~v~~~F~~l~~~i~~~~  169 (175)
T d2bmja1         153 NVDRVFQEVAQKVVTLR  169 (175)
T ss_dssp             THHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhh
Confidence            99999999999987765

>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=99.97  E-value=2.8e-32  Score=214.27  Aligned_cols=160  Identities=16%  Similarity=0.230  Sum_probs=129.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++||+++|++|||||||+++|.++.+...+.+|+|.++.  .+..+  .+.+++||++|++.+...+..++..++++++|
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   77 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKG--NVTIKLWDIGGQPRFRSMWERYCRGVSAIVYM   77 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEET--TEEEEEEEECCSHHHHTTHHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeee--eeeee--eEEEEEeeccccccccccccccccccchhhcc
Confidence            689999999999999999999999999999999987654  34444  46799999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ||+++.++|+.+..|+..+...  .++.|.+|||||.|+.....  ...........+++..+++++++||++|+||+++
T Consensus        78 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~  155 (164)
T d1zd9a1          78 VDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALD--EKELIEKMNLSAIQDREICCYSISCKEKDNIDIT  155 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             cccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhh--HHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHH
Confidence            9999999999999888877554  23455579999999732111  1112233333444556778999999999999999


Q ss_pred             HHHHHHHH
Q 041042          241 LKFITAKL  248 (268)
Q Consensus       241 f~~l~~~i  248 (268)
                      |++|++.+
T Consensus       156 ~~~l~~~~  163 (164)
T d1zd9a1         156 LQWLIQHS  163 (164)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHcc
Confidence            99998854

>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=99.97  E-value=2.5e-30  Score=203.00  Aligned_cols=157  Identities=19%  Similarity=0.223  Sum_probs=122.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||+++|.++.+ ..+.+|.|....  .+..  ..+.+.+||++|++.++..+..+++.++++++|
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~-~~~~~t~~~~~~--~~~~--~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   76 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDV-DTISPTLGFNIK--TLEH--RGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWV   76 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCC-SSCCCCSSEEEE--EEEE--TTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCC-CcccceEeeeee--eccc--cccceeeeecCcchhhhhHHHhhhhhhhcceee
Confidence            58999999999999999999998876 567788875543  3333  447789999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHh-C-CCCceEEEEeCCCCCCCCCccchhchHHHHHHH----HHHhCCeEEEEcCCCCcC
Q 041042          163 FDLTSRCTLKSVIRWYQQARKC-N-QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAY----AKALNATLFFSSATYNIN  236 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~-~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~Sa~~~~~  236 (268)
                      ||++|..++.....|+...... . .+.|.+||+||+|+...      ....+....+    ++..++++++|||++|+|
T Consensus        77 ~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g  150 (165)
T d1ksha_          77 VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA------LSCNAIQEALELDSIRSHHWRIQGCSAVTGED  150 (165)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC------CCHHHHHHHTTGGGCCSSCEEEEECCTTTCTT
T ss_pred             eecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccc------cCHHHHHHHHHhhhhhcCCCEEEEEECCCCCC
Confidence            9999999999888776655432 2 34455799999997321      1122222222    223356899999999999


Q ss_pred             HHHHHHHHHHHHhc
Q 041042          237 VNKILKFITAKLFD  250 (268)
Q Consensus       237 i~~~f~~l~~~i~~  250 (268)
                      |+++|++|++.+..
T Consensus       151 v~e~~~~l~~~i~~  164 (165)
T d1ksha_         151 LLPGIDWLLDDISS  164 (165)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999998865

>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=99.97  E-value=1.8e-31  Score=211.62  Aligned_cols=161  Identities=16%  Similarity=0.203  Sum_probs=123.3

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ....+||+++|++|||||||+++|.++.+. ...++.|.++  +.+...  .+.+.+||++|++.+...+..+++.+|++
T Consensus        13 ~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~-~~~~~~~~~~--~~i~~~--~~~~~i~d~~g~~~~~~~~~~~~~~~~~i   87 (176)
T d1fzqa_          13 PDQEVRILLLGLDNAGKTTLLKQLASEDIS-HITPTQGFNI--KSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTDIL   87 (176)
T ss_dssp             CSSCEEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETTEEE--EEEEET--TEEEEEEECSSCGGGHHHHHHHHTTCSEE
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHhcCCCC-cceeeeeeeE--EEeccC--CeeEeEeeccccccchhHHHHHhhcccee
Confidence            445699999999999999999999998874 3445556443  344444  46789999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHhC-C-CCceEEEEeCCCCCCCCCccchhchHHHH-HHHHHHhCCeEEEEcCCCCcC
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKCN-Q-TAIPIIIGTKFDDFIQLPIDLQWTIASQA-RAYAKALNATLFFSSATYNIN  236 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~~-~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~Sa~~~~~  236 (268)
                      |+|||+++..+|.++..|+..+.... . +.|++|||||+|+.   .........+.. ...++..++++++|||++|+|
T Consensus        88 i~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~---~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~g  164 (176)
T d1fzqa_          88 IYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLL---TAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEG  164 (176)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTST---TCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTT
T ss_pred             EEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEecccc---ccccHHHHHHHHHHHHHHhcCCEEEEEeCCCCCC
Confidence            99999999999999998887765542 2 34456999999973   222222222211 223344567899999999999


Q ss_pred             HHHHHHHHHHHH
Q 041042          237 VNKILKFITAKL  248 (268)
Q Consensus       237 i~~~f~~l~~~i  248 (268)
                      |+++|++|++.+
T Consensus       165 v~e~~~~l~~~i  176 (176)
T d1fzqa_         165 VQDGMNWVCKNV  176 (176)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHhcC
Confidence            999999998753

>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=99.97  E-value=1e-31  Score=214.41  Aligned_cols=165  Identities=18%  Similarity=0.188  Sum_probs=122.4

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEE
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAI  159 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~v  159 (268)
                      ..+.+||+++|++|||||||+++|.++.+. ...+|.+....  .+..  ..+.+.+||++|++.+..++..++++++++
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~-~~~~t~~~~~~--~~~~--~~~~~~i~D~~g~~~~~~~~~~~~~~~~~i   88 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVV-TTKPTIGFNVE--TLSY--KNLKLNVWDLGGQTSIRPYWRCYYADTAAV   88 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEE-EECSSTTCCEE--EEEE--TTEEEEEEEEC----CCTTGGGTTTTEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCC-ccccccceEEE--EEee--CCEEEEEEecccccccchhHHhhhccceeE
Confidence            334699999999999999999999988764 45567776543  2333  346789999999999999999999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHHh-CCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCH
Q 041042          160 LFMFDLTSRCTLKSVIRWYQQARKC-NQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINV  237 (268)
Q Consensus       160 ilv~D~~~~~s~~~~~~~~~~i~~~-~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  237 (268)
                      ++|||++|..++.++..|+..+... ....+| +|||||+|+....+.  ..+........+...++++++|||++|+||
T Consensus        89 i~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~~~--~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv  166 (182)
T d1moza_          89 IFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSA--SEVSKELNLVELKDRSWSIVASSAIKGEGI  166 (182)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCH--HHHHHHTTTTTCCSSCEEEEEEBGGGTBTH
T ss_pred             EEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccccCH--HHHHHHHHHHHHhhCCCEEEEEECCCCCCH
Confidence            9999999999999999888765443 333344 699999997322111  111122222334555778999999999999


Q ss_pred             HHHHHHHHHHHhcC
Q 041042          238 NKILKFITAKLFDI  251 (268)
Q Consensus       238 ~~~f~~l~~~i~~~  251 (268)
                      +++|++|++.+.+.
T Consensus       167 ~e~~~~l~~~i~~~  180 (182)
T d1moza_         167 TEGLDWLIDVIKEE  180 (182)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999988654

>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=99.96  E-value=1.1e-30  Score=206.80  Aligned_cols=159  Identities=19%  Similarity=0.195  Sum_probs=122.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +.+||+++|++|||||||+++|.++.+. ...+|.+..+.  ..  ....+.+.+||++|++.++..+..++++++++|+
T Consensus        11 k~~kIvlvG~~~vGKTSli~rl~~~~~~-~~~~t~~~~~~--~~--~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~   85 (173)
T d1e0sa_          11 KEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVE--TV--TYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   85 (173)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHTTCCCCE-EEEEETTEEEE--EE--EETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCC-CccceeeeeEE--Ee--eccceeeEEecCCCcchhhhHHHhhhcccceEEE
Confidence            3699999999999999999999988764 34455565443  22  3345778999999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh-CC-CCceEEEEeCCCCCCCCCccchhch-HHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKC-NQ-TAIPIIIGTKFDDFIQLPIDLQWTI-ASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~-~~-~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |||+++.+++..+..|+...... .. ..|++||+||+|+...   .....+ .+...+.++..++.+++|||++|+||+
T Consensus        86 v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~---~~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~  162 (173)
T d1e0sa_          86 VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA---MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLY  162 (173)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC---CCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHH
T ss_pred             EEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccc---ccHHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHH
Confidence            99999999999999888776543 33 3444699999997321   111112 222233445557789999999999999


Q ss_pred             HHHHHHHHHH
Q 041042          239 KILKFITAKL  248 (268)
Q Consensus       239 ~~f~~l~~~i  248 (268)
                      |+|++|.+.+
T Consensus       163 e~~~~l~~~~  172 (173)
T d1e0sa_         163 EGLTWLTSNY  172 (173)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhc
Confidence            9999998765

>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=99.96  E-value=4.8e-29  Score=193.63  Aligned_cols=158  Identities=16%  Similarity=0.123  Sum_probs=124.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEE
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMF  163 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~  163 (268)
                      +||+++|++|||||||+++|.++++...+..+..     .....+...+.+.+||++|.+.+......+++.+++++++|
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGF-----NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSC-----CEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceee-----EEEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            5999999999999999999999988665444322     22344567788999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHHhC-CCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH
Q 041042          164 DLTSRCTLKSVIRWYQQARKCN-QTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL  241 (268)
Q Consensus       164 D~~~~~s~~~~~~~~~~i~~~~-~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f  241 (268)
                      |++++.++..+..|+.++.... ...+| ++++||.|+....  ....+..+....+++..++++++|||++|+||+++|
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~  153 (160)
T d1r8sa_          76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (160)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             EecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccc--cHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHH
Confidence            9999999999998888776543 33444 6999999963211  111222334445666678899999999999999999


Q ss_pred             HHHHHHH
Q 041042          242 KFITAKL  248 (268)
Q Consensus       242 ~~l~~~i  248 (268)
                      ++|++++
T Consensus       154 ~~l~~~l  160 (160)
T d1r8sa_         154 DWLSNQL  160 (160)
T ss_dssp             HHHHHHC
T ss_pred             HHHHhcC
Confidence            9999864

>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=99.93  E-value=9.7e-27  Score=187.08  Aligned_cols=164  Identities=16%  Similarity=0.151  Sum_probs=122.5

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +++||+++|+.|||||||++||..+.|  .+.||+|.++.    .+....+.+++||++|++.++..+..+++.++++++
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~----~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   74 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEY----PFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMF   74 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEE----EEECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEE----EEeccceeeeeccccccccccccccccccccceeeE
Confidence            369999999999999999999999887  47899998764    334456779999999999999999999999999999


Q ss_pred             EEeCCChh-----------hHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCC-CC---------cc-chhchHHHHHHH
Q 041042          162 MFDLTSRC-----------TLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQ-LP---------ID-LQWTIASQARAY  218 (268)
Q Consensus       162 v~D~~~~~-----------s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~-~~---------~~-~~~~~~~~~~~~  218 (268)
                      |||.++..           .++.+..|...+........| ++++||+|+... ..         +. ......+.+..+
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (200)
T d2bcjq2          75 LVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREF  154 (200)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHH
T ss_pred             eeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHH
Confidence            99998764           466677888888766544444 699999996310 00         00 000112222222


Q ss_pred             HH----------HhCCeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          219 AK----------ALNATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       219 ~~----------~~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ..          ...+.+++|||++|.||+++|+.+.+.|++.
T Consensus       155 i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         155 ILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             HHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence            21          1234578999999999999999998888643

>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=99.93  E-value=5.9e-26  Score=179.33  Aligned_cols=159  Identities=16%  Similarity=0.157  Sum_probs=115.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +++||+|+|.+|||||||++++.++++.. ..++.+...  ......  .+.+.+||+++++.+...+..++..++++++
T Consensus        14 k~~kI~vvG~~~~GKSsLi~rl~~~~~~~-~~~~~~~~~--~~~~~~--~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~   88 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIGSNV--EEIVIN--NTRFLMWDIGGQESLRSSWNTYYTNTEFVIV   88 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCEE-EECCSCSSC--EEEEET--TEEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceeE--EEEeec--ceEEEEeccccccccccchhhhhccceeeee
Confidence            46999999999999999999999998753 333344332  333333  3668899999999999999999999999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhch-HHHHHHHHHHhCCeEEEEcCCCCcCHH
Q 041042          162 MFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTI-ASQARAYAKALNATLFFSSATYNINVN  238 (268)
Q Consensus       162 v~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~Sa~~~~~i~  238 (268)
                      |+|.++.+++.....+.......  ....|++||+||+|+...   ...... .......++..++++++|||++|+||+
T Consensus        89 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~---~~~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~  165 (177)
T d1zj6a1          89 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC---MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLC  165 (177)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC---CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHH
T ss_pred             ecccccccchhhhhhhhhhhhhcccccceEEEEEEEccccccc---CcHHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHH
Confidence            99999999999887666555443  235555799999996311   111111 111222234456789999999999999


Q ss_pred             HHHHHHHHHH
Q 041042          239 KILKFITAKL  248 (268)
Q Consensus       239 ~~f~~l~~~i  248 (268)
                      ++|++|++++
T Consensus       166 e~~~~L~~~l  175 (177)
T d1zj6a1         166 QGLEWMMSRL  175 (177)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999999876

>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=99.93  E-value=3.6e-25  Score=172.68  Aligned_cols=162  Identities=16%  Similarity=0.192  Sum_probs=123.4

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      ++||+++|++|||||||+++|+++++.. ..+|.+...  .....+  .+.+.+||.+|.+.+......++..+++++++
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~~~~~-~~~~~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIGFNV--ETVTYK--NLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYV   79 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSSEEE--EEEEET--TEEEEEEEECCCGGGGGGGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCcc-eecccceee--eeeccC--ceEEEEeeccccccccccchhhhhhhhhhhhh
Confidence            5999999999999999999999998854 445555433  233333  45688999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHHh-CCCCce-EEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          163 FDLTSRCTLKSVIRWYQQARKC-NQTAIP-IIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       163 ~D~~~~~s~~~~~~~~~~i~~~-~~~~~~-ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      +|+++..++.....++...... ....++ ++|+||.|+.....  ......+.+..++...+++|++|||++|.||+++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~  157 (169)
T d1upta_          80 VDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKGTGLDEA  157 (169)
T ss_dssp             EETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHH
T ss_pred             hhhhhcchhhhccchhhhhhhhhccccceEEEEEeecccccccc--HHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHH
Confidence            9999999988888765554433 333444 69999999732111  1122234444566667889999999999999999


Q ss_pred             HHHHHHHHhcC
Q 041042          241 LKFITAKLFDI  251 (268)
Q Consensus       241 f~~l~~~i~~~  251 (268)
                      |++|++.+.++
T Consensus       158 ~~~l~~~l~~k  168 (169)
T d1upta_         158 MEWLVETLKSR  168 (169)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHhC
Confidence            99999988654

>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=99.93  E-value=2.7e-26  Score=183.73  Aligned_cols=160  Identities=18%  Similarity=0.178  Sum_probs=112.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILF  161 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vil  161 (268)
                      +++||+++|+.|||||||++||..+.+.     |+|..    +..++...+++++|||+|+++|..++..|++.++++++
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~-----t~~~~----~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~   71 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEA-----GTGIV----ETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIF   71 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSC-----CCSEE----EEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCC-----CccEE----EEEEEeeeeeeeeeccccccccccchhhcccCCceeee
Confidence            3699999999999999999999887664     34432    23344456779999999999999999999999999999


Q ss_pred             EEeCCChhhH-----------HHHHHHHHHHHHhCCCC-ceEEEEeCCCCCC----------CCCccchhchHHHH----
Q 041042          162 MFDLTSRCTL-----------KSVIRWYQQARKCNQTA-IPIIIGTKFDDFI----------QLPIDLQWTIASQA----  215 (268)
Q Consensus       162 v~D~~~~~s~-----------~~~~~~~~~i~~~~~~~-~~ilvgnK~Dl~~----------~~~~~~~~~~~~~~----  215 (268)
                      |||+++.++|           +....|...+....... |.+++|||+|+..          ..+........+++    
T Consensus        72 v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (195)
T d1svsa1          72 CVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYI  151 (195)
T ss_dssp             EEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHH
T ss_pred             EEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHH
Confidence            9999998876           33345555554444444 4469999999521          00000001111111    


Q ss_pred             -HHHHHH------hCCeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          216 -RAYAKA------LNATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       216 -~~~~~~------~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                       ..+...      ..+.+++|||++|.||+++|+.+.+.+++
T Consensus       152 ~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~  193 (195)
T d1svsa1         152 QCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIK  193 (195)
T ss_dssp             HHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHh
Confidence             111111      23457889999999999999999887764

>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=99.92  E-value=2.9e-24  Score=166.51  Aligned_cols=154  Identities=14%  Similarity=0.143  Sum_probs=115.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEe
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFD  164 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D  164 (268)
                      ||+++|++|||||||+++|.++.+. .+.+|.+....    ......+...+||+.|...+......++..+++++++||
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTSE----ELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEEE----EECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeEE----EeccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            8999999999999999999999874 56777765443    333344568899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHHhC-C-CCceEEEEeCCCCCCCCCccchhchHHH--------HHHHHHHhCCeEEEEcCCCC
Q 041042          165 LTSRCTLKSVIRWYQQARKCN-Q-TAIPIIIGTKFDDFIQLPIDLQWTIASQ--------ARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       165 ~~~~~s~~~~~~~~~~i~~~~-~-~~~~ilvgnK~Dl~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      .++..++.....|+....... . +.|+++++||.|+......   ....+.        ...+....++.+++|||++|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~~~---~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg  153 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSE---AELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMR  153 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCCCH---HHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTT
T ss_pred             ccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccCCH---HHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCC
Confidence            999999999888877776653 2 3444699999997422211   101110        01111233457999999999


Q ss_pred             cCHHHHHHHHHH
Q 041042          235 INVNKILKFITA  246 (268)
Q Consensus       235 ~~i~~~f~~l~~  246 (268)
                      +||+|+|++|.+
T Consensus       154 ~Gv~e~~~~l~~  165 (166)
T d2qtvb1         154 NGYLEAFQWLSQ  165 (166)
T ss_dssp             BSHHHHHHHHTT
T ss_pred             CCHHHHHHHHhC
Confidence            999999999864

>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=99.92  E-value=3.3e-24  Score=169.89  Aligned_cols=163  Identities=17%  Similarity=0.162  Sum_probs=112.6

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCC-CCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc--------hhhh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQ-GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH--------LPVA  152 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~--------~~~~  152 (268)
                      +.-+|+|+|.+|||||||+++|++.+... ...+..............+  ..+.+|||+|.......        ...+
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~~~   81 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEA   81 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeee--eeeeecccccccccccccchhcccccccc
Confidence            34479999999999999999999876321 2222222233333344444  45789999997554322        3345


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-CeEEEEcC
Q 041042          153 CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-ATLFFSSA  231 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa  231 (268)
                      +++||++|+|+|+++..+... ..|++.++....+.|+|+|+||+|+.   ..     ..+..+.+.+..+ ..++++||
T Consensus        82 ~~~ad~il~v~D~~~~~~~~~-~~i~~~l~~~~~~~piilv~NK~Dl~---~~-----~~~~~~~~~~~~~~~~~~~iSA  152 (178)
T d1wf3a1          82 LADVNAVVWVVDLRHPPTPED-ELVARALKPLVGKVPILLVGNKLDAA---KY-----PEEAMKAYHELLPEAEPRMLSA  152 (178)
T ss_dssp             TSSCSEEEEEEETTSCCCHHH-HHHHHHHGGGTTTSCEEEEEECGGGC---SS-----HHHHHHHHHHTSTTSEEEECCT
T ss_pred             cccccceeeeechhhhhcccc-cchhhheeccccchhhhhhhcccccc---cC-----HHHHHHHHHhhcccCceEEEec
Confidence            789999999999987655433 45556666666666778999999972   11     1233445555554 57889999


Q ss_pred             CCCcCHHHHHHHHHHHHhcCccch
Q 041042          232 TYNINVNKILKFITAKLFDIPWTL  255 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i~~~~~~~  255 (268)
                      ++|.||+++++.|++.+.+.++-.
T Consensus       153 ~~~~gi~~L~~~i~~~lpe~p~~~  176 (178)
T d1wf3a1         153 LDERQVAELKADLLALMPEGPFFY  176 (178)
T ss_dssp             TCHHHHHHHHHHHHTTCCBCCCSS
T ss_pred             CCCCCHHHHHHHHHHhCCCCCCCC
Confidence            999999999999999887666543

>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=99.90  E-value=9.8e-25  Score=175.55  Aligned_cols=162  Identities=15%  Similarity=0.206  Sum_probs=107.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEEEE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAILFM  162 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv  162 (268)
                      .+||+++|++|||||||++||   .+...+.||+|.+..  .+..  +.+.+++||++|++.++..+..+++++++++++
T Consensus         2 ~iKivllG~~~vGKTsll~r~---~f~~~~~pTiG~~~~--~~~~--~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~   74 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHEY--DFEI--KNVPFKMVDVGGQRSERKRWFECFDSVTSILFL   74 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH---HHHHSCCCCSSEEEE--EEEE--TTEEEEEEEECC-------CTTSCTTCCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHH---hcCCCCCCeeeeEEE--EEee--eeeeeeeecccceeeecccccccccccceeEEE
Confidence            589999999999999999999   366778899996543  3433  456789999999999999999999999999999


Q ss_pred             EeCCChhh----------HHHHHHHHHHHHHh-C-CCCceEEEEeCCCCCCC-C---------Ccc-chhchHHHHHHHH
Q 041042          163 FDLTSRCT----------LKSVIRWYQQARKC-N-QTAIPIIIGTKFDDFIQ-L---------PID-LQWTIASQARAYA  219 (268)
Q Consensus       163 ~D~~~~~s----------~~~~~~~~~~i~~~-~-~~~~~ilvgnK~Dl~~~-~---------~~~-~~~~~~~~~~~~~  219 (268)
                      ||.++..+          ++....|+..+... . .+.|.+|+|||+|+... +         ++. ......+.+.++.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (200)
T d1zcba2          75 VSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFL  154 (200)
T ss_dssp             EETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHH
T ss_pred             EEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHH
Confidence            99998643          34444444444332 2 34455799999996311 0         000 0001122333322


Q ss_pred             HH-----------hCCeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          220 KA-----------LNATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       220 ~~-----------~~~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      ..           ..+-+++|||+++.||+++|+.+.+.|++.
T Consensus       155 ~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         155 VECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             HHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence            21           124467899999999999999988877653

>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=99.89  E-value=2.2e-24  Score=167.78  Aligned_cols=151  Identities=18%  Similarity=0.209  Sum_probs=111.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc--------chhhhhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD--------HLPVACK  154 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~--------~~~~~~~  154 (268)
                      +||+++|.+|||||||+++|++.+.. ....++...+.....+...+.  .+.+||++|......        ....++.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   79 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQEIE   79 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccCc--eeeeccccccccccccchhHHHHHHHHHHH
Confidence            79999999999999999999987643 233333333333344555554  577899999654322        2345678


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      .+|++++++|..+..+++....|.+.+.......|+|||+||+||..   +.. .        +.+..+.+++++||++|
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~Dl~~---~~~-~--------~~~~~~~~~~~iSAk~~  147 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITG---ETL-G--------MSEVNGHALIRLSARTG  147 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHC---CCC-E--------EEEETTEEEEECCTTTC
T ss_pred             hccccceeeccccccchhhhhhhhhhhhhcccccceeeccchhhhhh---hHH-H--------HHHhCCCcEEEEECCCC
Confidence            99999999999999988888888777777666677789999999732   110 0        11224678999999999


Q ss_pred             cCHHHHHHHHHHHH
Q 041042          235 INVNKILKFITAKL  248 (268)
Q Consensus       235 ~~i~~~f~~l~~~i  248 (268)
                      .||++++++|++.+
T Consensus       148 ~gi~~L~~~l~~~l  161 (161)
T d2gj8a1         148 EGVDVLRNHLKQSM  161 (161)
T ss_dssp             TTHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHhhC
Confidence            99999999998764

>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=99.89  E-value=1.2e-22  Score=160.49  Aligned_cols=156  Identities=17%  Similarity=0.173  Sum_probs=110.8

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      .+..||+++|++|||||||+++|.++.+.. ..++.+.+..  .+.+++.  .+.+||+.++..+...+..+++..++++
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~-~~~~~~~~~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQ-HVPTLHPTSE--ELTIAGM--TFTTFDLGGHIQARRVWKNYLPAINGIV   85 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSCE--EEEETTE--EEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcc-eeccccccee--EEEeccc--ccccccccchhhhhhHHhhhhcccceee
Confidence            345899999999999999999999988754 4455555543  4455554  4779999999999999999999999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHHh--CCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHH-----------------H
Q 041042          161 FMFDLTSRCTLKSVIRWYQQARKC--NQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAK-----------------A  221 (268)
Q Consensus       161 lv~D~~~~~s~~~~~~~~~~i~~~--~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~-----------------~  221 (268)
                      +++|+++...+.....++......  ..+.|.+|++||.|+....+       ..++.+...                 .
T Consensus        86 ~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~~~-------~~~i~~~~~~~~~~~~~~~~~~~~~~~  158 (186)
T d1f6ba_          86 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAIS-------EERLREMFGLYGQTTGKGSVSLKELNA  158 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCCC-------HHHHHHHHTCTTTCCCSSCCCTTTCCS
T ss_pred             eeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccccCC-------HHHHHHHHhhcccchhhhhhhHHHhhc
Confidence            999999999998887655554433  24556689999999743221       222222221                 2


Q ss_pred             hCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          222 LNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       222 ~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .++.+++|||++|+||+|+|++|++.+
T Consensus       159 ~~~~~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         159 RPLEVFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             CCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             CCCEEEEEeCCCCCCHHHHHHHHHHhh
Confidence            235689999999999999999998754

>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=99.88  E-value=3.9e-22  Score=157.97  Aligned_cols=160  Identities=13%  Similarity=0.100  Sum_probs=104.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc----ccc---hhhhhcCCc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA----QDH---LPVACKDSI  157 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~----~~~---~~~~~~~a~  157 (268)
                      .|+++|.+|||||||+|+|++........+..+.... ...........+++|||+|....    ..+   .-..+..++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPN-LGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTR   81 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCE-EEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeee-eceeeecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhh
Confidence            4899999999999999999887643333222222222 22223333445889999994331    112   223467899


Q ss_pred             EEEEEEeCCChh--hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCc
Q 041042          158 AILFMFDLTSRC--TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNI  235 (268)
Q Consensus       158 ~vilv~D~~~~~--s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  235 (268)
                      ++++++|.....  ++.....|+........+.|.|+|+||+|+   ...    ...++..+.....+.+++++||++|.
T Consensus        82 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~---~~~----~~~~~~~~~~~~~~~~~~~iSA~tg~  154 (180)
T d1udxa2          82 VLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDL---LEE----EAVKALADALAREGLAVLPVSALTGA  154 (180)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTT---SCH----HHHHHHHHHHHTTTSCEEECCTTTCT
T ss_pred             hhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhh---hhH----HHHHHHHHHHHhcCCeEEEEEcCCCC
Confidence            999999986542  333333444333222234566899999997   221    22334555566778999999999999


Q ss_pred             CHHHHHHHHHHHHhcCc
Q 041042          236 NVNKILKFITAKLFDIP  252 (268)
Q Consensus       236 ~i~~~f~~l~~~i~~~~  252 (268)
                      ||+++++.|.+.+...+
T Consensus       155 gid~L~~~i~~~l~~~~  171 (180)
T d1udxa2         155 GLPALKEALHALVRSTP  171 (180)
T ss_dssp             THHHHHHHHHHHHHTSC
T ss_pred             CHHHHHHHHHHHHhhcC
Confidence            99999999988886554

>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=99.86  E-value=3.5e-21  Score=152.53  Aligned_cols=164  Identities=12%  Similarity=0.103  Sum_probs=107.2

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCC-----cceeeEE--EEEEECCeEEEEEEEeCCCccccccchhhhh
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPG-----EGLNMMD--KTLLVRGARISYSIWEVTGDAKAQDHLPVAC  153 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t-----~~~~~~~--~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~  153 (268)
                      .+.++|+++|.+|+|||||+|+|++.........+     .|.....  ..+..+  ...+.++|++|+..|.......+
T Consensus         3 ~k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~--~~~~~~~d~~g~~~~~~~~~~~l   80 (179)
T d1wb1a4           3 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLE--NYRITLVDAPGHADLIRAVVSAA   80 (179)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEET--TEEEEECCCSSHHHHHHHHHHHT
T ss_pred             CCCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccC--Cccccccccccccccccchhhhh
Confidence            46789999999999999999999874322111111     1111111  112223  34578999999999988888899


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh----CCeEEEE
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL----NATLFFS  229 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~  229 (268)
                      ..+|++++|+|+++....+....| ..+...  +.|+++|.||+|+   ...+......+..+.+.+..    +.+++++
T Consensus        81 ~~~d~~ilv~d~~~g~~~~~~~~~-~~~~~~--~~p~iiv~NKiD~---~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~i  154 (179)
T d1wb1a4          81 DIIDLALIVVDAKEGPKTQTGEHM-LILDHF--NIPIIVVITKSDN---AGTEEIKRTEMIMKSILQSTHNLKNSSIIPI  154 (179)
T ss_dssp             TSCCEEEEEEETTTCSCHHHHHHH-HHHHHT--TCCBCEEEECTTS---SCHHHHHHHHHHHHHHHHHSSSGGGCCEEEC
T ss_pred             hhccccccccccccccchhhhhhh-hhhhhc--CCcceeccccccc---cCHHHHHHHHHHHHHHHHHhhcCCCCeEEEE
Confidence            999999999999876543332222 223322  4566799999997   22222222233334443332    4689999


Q ss_pred             cCCCCcCHHHHHHHHHHHHhcCc
Q 041042          230 SATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       230 Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      ||++|+|++++++.|.+.+.+.+
T Consensus       155 SA~~g~gi~eL~~~I~~~l~~~e  177 (179)
T d1wb1a4         155 SAKTGFGVDELKNLIITTLNNAE  177 (179)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHHSC
T ss_pred             EccCCcCHHHHHHHHHhcCCccc
Confidence            99999999999999998887654

>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=99.85  E-value=3.4e-21  Score=151.22  Aligned_cols=157  Identities=18%  Similarity=0.146  Sum_probs=99.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCC-CCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc---------ccchhhhhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQ-GGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA---------QDHLPVACK  154 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~---------~~~~~~~~~  154 (268)
                      .|+|+|.+|||||||+++|++..... ...+  +.+.......++.....+.+||++|....         ......++.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~--~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~   79 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEE--GVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIR   79 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC----------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccC--ceeeccccccccccccccccccccceeeeeccccccccccccccccc
Confidence            68999999999999999999865421 1111  11111112223334455889999994322         122334567


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATYN  234 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  234 (268)
                      .+|+++++.|.++...... ..|+..+...  +.|+|+|+||+|+   + .   ....+...++.+....+++++||++|
T Consensus        80 ~ad~i~~~~~~~~~~~~~~-~~~~~~l~~~--~~pviiv~NK~Dl---~-~---~~~~~~~~~~~~~~~~~~i~iSAk~g  149 (171)
T d1mkya1          80 EADLVLFVVDGKRGITKED-ESLADFLRKS--TVDTILVANKAEN---L-R---EFEREVKPELYSLGFGEPIPVSAEHN  149 (171)
T ss_dssp             TCSEEEEEEETTTCCCHHH-HHHHHHHHHH--TCCEEEEEESCCS---H-H---HHHHHTHHHHGGGSSCSCEECBTTTT
T ss_pred             cCcEEEEeecccccccccc-cccccccccc--cccccccchhhhh---h-h---hhhhHHHHHHHhcCCCCeEEEecCCC
Confidence            8999999999876554433 4455555554  3466899999996   1 1   11222333344444557899999999


Q ss_pred             cCHHHHHHHHHHHHhcCcc
Q 041042          235 INVNKILKFITAKLFDIPW  253 (268)
Q Consensus       235 ~~i~~~f~~l~~~i~~~~~  253 (268)
                      .||++++++|.+.+.+...
T Consensus       150 ~gid~L~~~i~~~l~e~~~  168 (171)
T d1mkya1         150 INLDTMLETIIKKLEEKGL  168 (171)
T ss_dssp             BSHHHHHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHhCCCCCC
Confidence            9999999999998877654

>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=99.85  E-value=9.4e-21  Score=153.17  Aligned_cols=115  Identities=15%  Similarity=0.143  Sum_probs=86.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc-cchhhhhcCCcEEEEEE
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ-DHLPVACKDSIAILFMF  163 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-~~~~~~~~~a~~vilv~  163 (268)
                      +|+++|++|||||||+++|+++.+... .+|++.++....+ .++..+.+.+||++|++.++ ..+..+++.++++++||
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~~t~~~~~~~~~~-~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~   79 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSITDSSAIYKV-NNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVV   79 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-CCCCSCEEEEEEC-SSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-cCCeeEEEEEEEE-eeeeeeeeeeeeccccccccchhhhhhhhhccccceEE
Confidence            699999999999999999999987554 4677766543332 24556789999999999885 56788889999999999


Q ss_pred             eCCChhhH-HHHHHHHHHHHH-h--CCCCce-EEEEeCCCCCC
Q 041042          164 DLTSRCTL-KSVIRWYQQARK-C--NQTAIP-IIIGTKFDDFI  201 (268)
Q Consensus       164 D~~~~~s~-~~~~~~~~~i~~-~--~~~~~~-ilvgnK~Dl~~  201 (268)
                      |+++..++ .....|+..+.. .  ....+| +||+||+|+..
T Consensus        80 D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~  122 (207)
T d2fh5b1          80 DSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM  122 (207)
T ss_dssp             ETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTT
T ss_pred             EcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCC
Confidence            99998764 455555544422 1  234455 58899999753

>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=99.84  E-value=1.6e-21  Score=151.14  Aligned_cols=149  Identities=15%  Similarity=0.251  Sum_probs=97.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc---------cchhhhh
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ---------DHLPVAC  153 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~---------~~~~~~~  153 (268)
                      +||+++|.+|||||||+|+|++.+.. ....+..........+...+  ..+.+|||+|.....         ......+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC--eeEEeccccccccCCccHHHHHHHHHHHHHH
Confidence            69999999999999999999886532 22222222223334445555  457799999943211         1122236


Q ss_pred             cCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCC
Q 041042          154 KDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSATY  233 (268)
Q Consensus       154 ~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  233 (268)
                      ..+|++++|+|+++....+...-+..     ....++++++||.|+...   .    ..++... ....+.+++++||++
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~~~~~~-----~~~~~~i~~~~k~d~~~~---~----~~~~~~~-~~~~~~~~~~vSA~~  145 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDRKILER-----IKNKRYLVVINKVDVVEK---I----NEEEIKN-KLGTDRHMVKISALK  145 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHHHH-----HTTSSEEEEEEECSSCCC---C----CHHHHHH-HHTCSTTEEEEEGGG
T ss_pred             HhCCEEEEEEeCCCCcchhhhhhhhh-----cccccceeeeeeccccch---h----hhHHHHH-HhCCCCcEEEEECCC
Confidence            78999999999998877654432221     134566799999997322   1    1122211 112357899999999


Q ss_pred             CcCHHHHHHHHHHH
Q 041042          234 NINVNKILKFITAK  247 (268)
Q Consensus       234 ~~~i~~~f~~l~~~  247 (268)
                      |.||++++++|.++
T Consensus       146 g~gi~~L~~~I~ke  159 (160)
T d1xzpa2         146 GEGLEKLEESIYRE  159 (160)
T ss_dssp             TCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHhc
Confidence            99999999998764

>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=99.84  E-value=4.2e-21  Score=157.15  Aligned_cols=163  Identities=14%  Similarity=0.141  Sum_probs=110.7

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhhcCCcEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVACKDSIAIL  160 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vi  160 (268)
                      ...+||+++|+.|||||||+++|..+.+    .||+|.+.  ..+.+++  +.+++||++|++.++..+..+++++++++
T Consensus         4 k~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~~~--~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii   75 (221)
T d1azta2           4 RATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIFE--TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAII   75 (221)
T ss_dssp             HHSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSCEE--EEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEE
T ss_pred             hhcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCeEE--EEEEECc--EEEEEEecCccceeccchhhhcccccceE
Confidence            3468999999999999999999976654    57888654  4455554  67899999999999999999999999999


Q ss_pred             EEEeCCChhh----------HHHH-HHHHHHHHHhC-CCCceEEEEeCCCCCCC-C--C---------cc----------
Q 041042          161 FMFDLTSRCT----------LKSV-IRWYQQARKCN-QTAIPIIIGTKFDDFIQ-L--P---------ID----------  206 (268)
Q Consensus       161 lv~D~~~~~s----------~~~~-~~~~~~i~~~~-~~~~~ilvgnK~Dl~~~-~--~---------~~----------  206 (268)
                      +|+|.++.+.          +.+. ..|...+.... .+.|++|+|||+||... +  .         +-          
T Consensus        76 ~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~  155 (221)
T d1azta2          76 FVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDAT  155 (221)
T ss_dssp             EEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCC
T ss_pred             EEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCccccc
Confidence            9999986532          2222 23333333322 34455799999997311 0  0         00          


Q ss_pred             ---chhchHHHHHHH-----HHHhC--------CeEEEEcCCCCcCHHHHHHHHHHHHhcC
Q 041042          207 ---LQWTIASQARAY-----AKALN--------ATLFFSSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       207 ---~~~~~~~~~~~~-----~~~~~--------~~~~~~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                         .......++..+     .+.+.        +-.++|||.++.||+.+|+.+.+.|++.
T Consensus       156 ~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         156 PEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             ccCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHH
Confidence               000012222222     22111        2346799999999999999987777654

>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=99.81  E-value=2.4e-19  Score=142.11  Aligned_cols=155  Identities=14%  Similarity=0.220  Sum_probs=97.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCC--CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccc------------cc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEK--EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ------------DH  148 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~------------~~  148 (268)
                      .+||+++|.+|||||||+|+|++...  ......|. .......+.+++..  +.++|++|.....            ..
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~--~~~~d~~g~~~~~~~~~~~~~~~~~~~   84 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTT-RDPVDDEVFIDGRK--YVFVDTAGLRRKSRVEPRTVEKYSNYR   84 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC-------CCEEEEETTEE--EEESSCSCC-----------CCSCCHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCcceeecccccc-cccceeeeccCCce--eeeeccCCccccccccccccccchhHH
Confidence            59999999999999999999998753  22232222 22222345566654  6688999864322            22


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH-----hC
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA-----LN  223 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~-----~~  223 (268)
                      ...+++.+|++++|+|++....- ....++..+...  +.+.|+|+||+|+.   ... .. ..++..+..++     ..
T Consensus        85 ~~~~~~~~dvii~v~d~~~~~~~-~~~~~~~~~~~~--~~~~i~v~nK~D~~---~~~-~~-~~~~~~~~~~~~~~~~~~  156 (186)
T d1mkya2          85 VVDSIEKADVVVIVLDATQGITR-QDQRMAGLMERR--GRASVVVFNKWDLV---VHR-EK-RYDEFTKLFREKLYFIDY  156 (186)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCH-HHHHHHHHHHHT--TCEEEEEEECGGGS---TTG-GG-CHHHHHHHHHHHCGGGTT
T ss_pred             HHHHHhcCCEEEEeecccccchh-hHHHHHHHHHHc--CCceeeeccchhhh---cch-hh-hhhhHHHHHHHHhcccCC
Confidence            33446789999999999765432 223444444443  34558999999973   222 11 12222222222     13


Q ss_pred             CeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          224 ATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       224 ~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      ++++++||++|.|++++++.|.+.+
T Consensus       157 ~~i~~vSa~~g~gv~~L~~~i~~~~  181 (186)
T d1mkya2         157 SPLIFTSADKGWNIDRMIDAMNLAY  181 (186)
T ss_dssp             SCEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            5799999999999999999996654

>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=99.81  E-value=3.7e-19  Score=140.67  Aligned_cols=150  Identities=15%  Similarity=0.197  Sum_probs=95.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc---------------ccch
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA---------------QDHL  149 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~---------------~~~~  149 (268)
                      .|+++|.+|||||||+|++++........+.+..+  ...+...+    +.+|||||....               ....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~--~~~~~~~~----~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~   75 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRK--IIEIEWKN----HKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   75 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTS--CEEEEETT----EEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeec--cccccccc----ceecccCCceeccccccccccccchhhhhhh
Confidence            58999999999999999999987654444422222  22333333    568999994211               1123


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHH----------HHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHH
Q 041042          150 PVACKDSIAILFMFDLTSRCTLKSVI----------RWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYA  219 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~~~~~s~~~~~----------~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~  219 (268)
                      ...++.+|++++|+|.+.........          ..++.+..  .+.|.|+|+||+|+   +.+  ..   .....+.
T Consensus        76 ~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~--~~~p~iiv~NK~D~---~~~--~~---~~~~~~~  145 (184)
T d2cxxa1          76 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE--LDIPTIVAVNKLDK---IKN--VQ---EVINFLA  145 (184)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH--TTCCEEEEEECGGG---CSC--HH---HHHHHHH
T ss_pred             hhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH--cCCCEEEEEeeeeh---hhh--HH---HHHHHHH
Confidence            34467899999999987554322211          12222322  24566799999996   222  11   1222222


Q ss_pred             HHhC-------CeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          220 KALN-------ATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       220 ~~~~-------~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      +..+       ..++++||++|.||+++++.|.+.+.+
T Consensus       146 ~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         146 EKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             HHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHhcccccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence            2222       348899999999999999999988764

>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=99.80  E-value=3.4e-20  Score=147.15  Aligned_cols=157  Identities=17%  Similarity=0.172  Sum_probs=97.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEE-CCeEEEEEEEeCCCcccc----ccchhh---hhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLV-RGARISYSIWEVTGDAKA----QDHLPV---ACKDS  156 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~----~~~~~~---~~~~a  156 (268)
                      +|+|+|.+|||||||+|+|.+........+....+.......+ ++.  .+++|||||..+.    ..+...   .+..+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~~--~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~   80 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGR--SFVMADLPGLIEGAHQGVGLGHQFLRHIERT   80 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSSC--EEEEEEHHHHHHHTTCTTTTHHHHHHHHHHC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCCc--EEEEecCCCcccCchHHHHHHHHHHHHHHHh
Confidence            6899999999999999999876543222221122222223333 333  4679999996322    222222   24568


Q ss_pred             cEEEEEEeCCChhhHHHHH---HHHHHHHHhC---CCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh--CCeEEE
Q 041042          157 IAILFMFDLTSRCTLKSVI---RWYQQARKCN---QTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL--NATLFF  228 (268)
Q Consensus       157 ~~vilv~D~~~~~s~~~~~---~~~~~i~~~~---~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  228 (268)
                      +.++++++....+......   .+........   .+.|.|||+||+|+    .+.     .+..+.+.+..  +.+++.
T Consensus        81 ~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl----~~~-----~~~~~~~~~~~~~~~~v~~  151 (185)
T d1lnza2          81 RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDM----PEA-----AENLEAFKEKLTDDYPVFP  151 (185)
T ss_dssp             CEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTS----TTH-----HHHHHHHHHHCCSCCCBCC
T ss_pred             hhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccch----HhH-----HHHHHHHHHHhccCCcEEE
Confidence            8888888776554322222   2222222222   23455799999996    221     12334444444  678999


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhcCc
Q 041042          229 SSATYNINVNKILKFITAKLFDIP  252 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~~~  252 (268)
                      +||++|.||+++++.|.+.+.+.+
T Consensus       152 iSA~~g~Gi~~L~~~i~~~L~~~p  175 (185)
T d1lnza2         152 ISAVTREGLRELLFEVANQLENTP  175 (185)
T ss_dssp             CSSCCSSTTHHHHHHHHHHHTSCC
T ss_pred             EECCCCCCHHHHHHHHHHhhhhCC
Confidence            999999999999999999987655

>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=99.76  E-value=3.4e-18  Score=136.61  Aligned_cols=153  Identities=17%  Similarity=0.211  Sum_probs=88.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc----------cc---chh
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA----------QD---HLP  150 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~----------~~---~~~  150 (268)
                      .+|+|+|.+|||||||+|+|.+...........+.+..........   .+.+.|+.|....          ..   ...
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~  100 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIETYI  100 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccc---cceEEEEEeeccccccccccchhhhHHhhhh
Confidence            4899999999999999999998653222222112111112222222   2334565552211          11   112


Q ss_pred             hhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH----hCCeE
Q 041042          151 VACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA----LNATL  226 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~----~~~~~  226 (268)
                      ..+..++++++|+|+++...- ....+++.+...  +.|.++|+||+|+   ++...   ..+..+.+.+.    ...++
T Consensus       101 ~~~~~~~~vi~viD~~~~~~~-~~~~~~~~l~~~--~~piivv~NK~D~---~~~~~---~~~~~~~~~~~l~~~~~~~~  171 (195)
T d1svia_         101 TTREELKAVVQIVDLRHAPSN-DDVQMYEFLKYY--GIPVIVIATKADK---IPKGK---WDKHAKVVRQTLNIDPEDEL  171 (195)
T ss_dssp             HHCTTEEEEEEEEETTSCCCH-HHHHHHHHHHHT--TCCEEEEEECGGG---SCGGG---HHHHHHHHHHHHTCCTTSEE
T ss_pred             ccccchhhhhhhhhccccccc-cccccccccccc--cCcceechhhccc---cCHHH---HHHHHHHHHHHhcccCCCCE
Confidence            334567999999999765432 223444555443  3456799999997   33222   22333333332    45678


Q ss_pred             EEEcCCCCcCHHHHHHHHHHHH
Q 041042          227 FFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      +.+||++|.|+++++++|.+.+
T Consensus       172 ~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         172 ILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHH
T ss_pred             EEEeCCCCCCHHHHHHHHHHHh
Confidence            9999999999999999998876

>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=99.76  E-value=9.6e-19  Score=143.47  Aligned_cols=160  Identities=11%  Similarity=0.124  Sum_probs=98.3

Q ss_pred             EEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEE----------------EECCeEEEEEEEeCCCccccccch
Q 041042           86 ISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTL----------------LVRGARISYSIWEVTGDAKAQDHL  149 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~----------------~~~~~~~~l~i~Dt~G~~~~~~~~  149 (268)
                      |+|+|.+++|||||++++++.........++.........                .++.....+.++||||++.|....
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~~   87 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLR   87 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSB
T ss_pred             EEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccccc
Confidence            9999999999999999998753221111111111001111                112334468899999999998888


Q ss_pred             hhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccch---------------hchHHH
Q 041042          150 PVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQ---------------WTIASQ  214 (268)
Q Consensus       150 ~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~---------------~~~~~~  214 (268)
                      ...+..+|++|+|+|+.+.-.-+.. ..+..+...  +.|+|||.||+|+...-.....               ....+.
T Consensus        88 ~~~~~~~D~~ilVvda~~g~~~~~~-~~~~~~~~~--~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~  164 (227)
T d1g7sa4          88 KRGGALADLAILIVDINEGFKPQTQ-EALNILRMY--RTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDTK  164 (227)
T ss_dssp             CSSSBSCSEEEEEEETTTCCCHHHH-HHHHHHHHT--TCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHHH
T ss_pred             hhcccccceEEEEEecccCcccchh-HHHHHhhcC--CCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHHHHH
Confidence            8888999999999999875443332 223333332  4567899999997422110000               000111


Q ss_pred             H----HHHHHH--------------hCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          215 A----RAYAKA--------------LNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       215 ~----~~~~~~--------------~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .    ..+...              ..++++.+||++|.|++++++.|....
T Consensus       165 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~  216 (227)
T d1g7sa4         165 VYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLA  216 (227)
T ss_dssp             HHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHH
Confidence            1    111111              114688999999999999999887655

>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=99.74  E-value=3.5e-17  Score=130.85  Aligned_cols=164  Identities=12%  Similarity=0.110  Sum_probs=106.0

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCCCCCCC-----CCCcceeeEEEEEEE-------------------CCeEEEEEE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDEKEQGG-----SPGEGLNMMDKTLLV-------------------RGARISYSI  136 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~-----~~t~~~~~~~~~~~~-------------------~~~~~~l~i  136 (268)
                      ...++|+++|..++|||||+++|.+.......     .-|....+......-                   ......+.+
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSF   82 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEE
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEee
Confidence            34689999999999999999999874211110     011111111111110                   112356889


Q ss_pred             EeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHH
Q 041042          137 WEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQAR  216 (268)
Q Consensus       137 ~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~  216 (268)
                      +||||++.|.......+..+|++++|.|+.+...-....+-+..+...+ ..++|++.||+|+   ..........+...
T Consensus        83 iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~-~~~iiv~inK~D~---~d~~~~~~~~~~~~  158 (195)
T d1kk1a3          83 IDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG-QKNIIIAQNKIEL---VDKEKALENYRQIK  158 (195)
T ss_dssp             EECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT-CCCEEEEEECGGG---SCHHHHHHHHHHHH
T ss_pred             eccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc-Cccceeeeecccc---hhhHHHHHHHHHHH
Confidence            9999999998887777889999999999887532222333333333332 2234688999996   32222223345555


Q ss_pred             HHHHHhC---CeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          217 AYAKALN---ATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       217 ~~~~~~~---~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      ++....+   ++++++||++|+|++++++.+.+.+
T Consensus       159 ~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         159 EFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             HHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            5555543   6899999999999999999988765

>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=99.73  E-value=1.1e-16  Score=125.48  Aligned_cols=160  Identities=15%  Similarity=0.142  Sum_probs=101.1

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCC-CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccc---------ccchhhh
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKE-QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA---------QDHLPVA  152 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~---------~~~~~~~  152 (268)
                      .-.|+++|.+|||||||+|+|++.+.. ....++............+..  .+..||++|....         ......+
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAY--QAIYVDTPGLHMEEKRAINRLMNKAASSS   82 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTE--EEEEESSSSCCHHHHHHHHHHHTCCTTSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCCc--eeEeecCCCceecchhhhhhhhhhccccc
Confidence            346999999999999999999987643 222332222222233333433  3556888874321         1222333


Q ss_pred             hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhC-CeEEEEcC
Q 041042          153 CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALN-ATLFFSSA  231 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa  231 (268)
                      ...+++++++.|.++...  ....+...+.+  ...++++|.||.|+   +.  ...........+....+ .+++++||
T Consensus        83 ~~~~~~~l~~~d~~~~~~--~~~~~~~~l~~--~~~~~i~v~~k~d~---~~--~~~~~~~~~~~~~~~~~~~~~~~vSA  153 (179)
T d1egaa1          83 IGDVELVIFVVEGTRWTP--DDEMVLNKLRE--GKAPVILAVNKVDN---VQ--EKADLLPHLQFLASQMNFLDIVPISA  153 (179)
T ss_dssp             CCCEEEEEEEEETTCCCH--HHHHHHHHHHS--SSSCEEEEEESTTT---CC--CHHHHHHHHHHHHTTSCCSEEEECCT
T ss_pred             hhhcceeEEEEecCccch--hHHHHHHHhhh--ccCceeeeeeeeec---cc--hhhhhhhHhhhhhhhcCCCCEEEEeC
Confidence            456778888888765432  22233333332  34566899999996   22  22334555666666665 58999999


Q ss_pred             CCCcCHHHHHHHHHHHHhcCcc
Q 041042          232 TYNINVNKILKFITAKLFDIPW  253 (268)
Q Consensus       232 ~~~~~i~~~f~~l~~~i~~~~~  253 (268)
                      ++|.|++++++.|.+.+.+.++
T Consensus       154 ~~g~gi~~L~~~i~~~lpe~~~  175 (179)
T d1egaa1         154 ETGLNVDTIAAIVRKHLPEATH  175 (179)
T ss_dssp             TTTTTHHHHHHHHHTTCCBCCC
T ss_pred             cCCCCHHHHHHHHHHhCCCCCC
Confidence            9999999999999988766654

>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=99.71  E-value=1.5e-16  Score=128.21  Aligned_cols=165  Identities=13%  Similarity=0.111  Sum_probs=102.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcCCCCC--C-CCC--CcceeeEEEEEEE------------------------CCeEE
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGDEKEQ--G-GSP--GEGLNMMDKTLLV------------------------RGARI  132 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~~~~~--~-~~~--t~~~~~~~~~~~~------------------------~~~~~  132 (268)
                      ..++|+++|..++|||||+++|++..-..  . ...  +.........+..                        .....
T Consensus         7 p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r   86 (205)
T d2qn6a3           7 PEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLR   86 (205)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEE
T ss_pred             CCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccceE
Confidence            35899999999999999999998632100  0 000  0000000011111                        01224


Q ss_pred             EEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchH
Q 041042          133 SYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIA  212 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~  212 (268)
                      .+.+.|++|+..|....-..+..+|++|+|+|+.+.-.-...++-+..+... ...+.||+.||+|+   ..........
T Consensus        87 ~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~-~i~~iIV~vNK~Dl---~~~~~~~~~~  162 (205)
T d2qn6a3          87 RISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII-GVKNLIIVQNKVDV---VSKEEALSQY  162 (205)
T ss_dssp             EEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT-TCCCEEEEEECGGG---SCHHHHHHHH
T ss_pred             EEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc-CCceeeeccccCCC---ccchHHHHHH
Confidence            6889999999999877777788999999999997642111222222223332 22344688999997   3332222224


Q ss_pred             HHHHHHHHHh---CCeEEEEcCCCCcCHHHHHHHHHHHHhc
Q 041042          213 SQARAYAKAL---NATLFFSSATYNINVNKILKFITAKLFD  250 (268)
Q Consensus       213 ~~~~~~~~~~---~~~~~~~Sa~~~~~i~~~f~~l~~~i~~  250 (268)
                      .+...+....   +++++.+||++|.||+++++.|...+..
T Consensus       163 ~~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~ip~  203 (205)
T d2qn6a3         163 RQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKT  203 (205)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             HHHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhCCC
Confidence            4444444443   3689999999999999999998887653

>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=99.68  E-value=2.6e-17  Score=132.39  Aligned_cols=112  Identities=19%  Similarity=0.142  Sum_probs=78.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccchhhhh----cCCcE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDHLPVAC----KDSIA  158 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~----~~a~~  158 (268)
                      +-.|+|+|.+|||||||+|+|+++++.    ++++.+.....+  +.....+.+||++|++.+...+..++    ..++.
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~~~~----~~tt~~~~~~~~--~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~   76 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTDSVR----PTVVSQEPLSAA--DYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKG   76 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSSCC----CBCCCSSCEEET--TGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC----CeEEecceEEEE--EeCCeEEEEEecccccchhhHHHHHHHHHhhhccc
Confidence            358999999999999999999998764    333333333333  33334578999999998766655544    45588


Q ss_pred             EEEEEeCC-ChhhHHHHHHHHHHH----HHhCCCC-ceEEEEeCCCCC
Q 041042          159 ILFMFDLT-SRCTLKSVIRWYQQA----RKCNQTA-IPIIIGTKFDDF  200 (268)
Q Consensus       159 vilv~D~~-~~~s~~~~~~~~~~i----~~~~~~~-~~ilvgnK~Dl~  200 (268)
                      +++++|+. +..+++.+..|+..+    ....... |.++|+||+|+.
T Consensus        77 ~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~  124 (209)
T d1nrjb_          77 LIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELF  124 (209)
T ss_dssp             EEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTST
T ss_pred             cceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeeccc
Confidence            88888866 466777777666443    3334444 446999999974

>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=99.67  E-value=8.6e-17  Score=128.54  Aligned_cols=161  Identities=12%  Similarity=0.119  Sum_probs=108.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC-------CCC-------CCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD-------EKE-------QGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH  148 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~-------~~~-------~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~  148 (268)
                      .++|+++|..++|||||++++.+.       .+.       .......|.+.....+.+......+.+.||+|+..|...
T Consensus         3 ~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~~   82 (196)
T d1d2ea3           3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKN   82 (196)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHH
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchHHHHHH
Confidence            589999999999999999999741       000       001112244444444555555567889999999999877


Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccch-hchHHHHHHHHHHhC----
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQ-WTIASQARAYAKALN----  223 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~-~~~~~~~~~~~~~~~----  223 (268)
                      ....+..+|++|+|+|+.+.-.-+. ++.+..+.... ..+.||+.||+|+   ..++.. .....+++.+....+    
T Consensus        83 ~~~~~~~aD~allVVda~~G~~~QT-~~~~~~a~~~~-~~~iIv~iNK~D~---~~~~~~~~~i~~~i~~~l~~~~~~~~  157 (196)
T d1d2ea3          83 MITGTAPLDGCILVVAANDGPMPQT-REHLLLARQIG-VEHVVVYVNKADA---VQDSEMVELVELEIRELLTEFGYKGE  157 (196)
T ss_dssp             HHHTSSCCSEEEEEEETTTCSCHHH-HHHHHHHHHTT-CCCEEEEEECGGG---CSCHHHHHHHHHHHHHHHHHTTSCTT
T ss_pred             HHHHHhhcCeEEEEEEcCCCCchhH-HHHHHHHHHhc-CCcEEEEEecccc---cccHHHHHHHHHHHHHHHHHhCCCcc
Confidence            7777899999999999987543222 22233333322 2344678999997   332222 223556777776665    


Q ss_pred             -CeEEEEcCCCC----------cCHHHHHHHHHHHH
Q 041042          224 -ATLFFSSATYN----------INVNKILKFITAKL  248 (268)
Q Consensus       224 -~~~~~~Sa~~~----------~~i~~~f~~l~~~i  248 (268)
                       ++++.+||++|          .++.++++.+.+.+
T Consensus       158 ~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         158 ETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             TSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             cCEEEEEEccccccccCcccccCCHHHHHHHHHhhC
Confidence             56899999998          58999998876654

>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=99.65  E-value=4.3e-16  Score=122.49  Aligned_cols=163  Identities=12%  Similarity=0.069  Sum_probs=82.8

Q ss_pred             CCceeEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcccccc-------chhh
Q 041042           79 DNLVALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD-------HLPV  151 (268)
Q Consensus        79 ~~~~~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~-------~~~~  151 (268)
                      +....+||+++|.+|||||||+|++.+.+.........+................+..++..+......       ....
T Consensus        12 p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (188)
T d1puia_          12 PSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALGE   91 (188)
T ss_dssp             SCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHHHH
T ss_pred             CCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeecccccchhhhhhhhhhhhhhh
Confidence            355579999999999999999999988765333222111111112222222222233333332221111       1111


Q ss_pred             h---hcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHh--CCeE
Q 041042          152 A---CKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKAL--NATL  226 (268)
Q Consensus       152 ~---~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~--~~~~  226 (268)
                      +   ....+.++.+.|........ ...++..+...  ..+.++++||+|+   +.........+..++..+..  ..++
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~--~~~~~~v~~k~D~---~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (188)
T d1puia_          92 YLEKRQSLQGLVVLMDIRHPLKDL-DQQMIEWAVDS--NIAVLVLLTKADK---LASGARKAQLNMVREAVLAFNGDVQV  165 (188)
T ss_dssp             HHHHCTTEEEEEEEEETTSCCCHH-HHHHHHHHHHT--TCCEEEEEECGGG---SCHHHHHHHHHHHHHHHGGGCSCEEE
T ss_pred             hhhhhhheeEEEEeecccccchhH-HHHHHHHhhhc--cccccchhhhhhc---cCHHHHHHHHHHHHHHHHhhCCCCcE
Confidence            1   12334455555554433322 23444444432  4456789999997   33322222233333333333  3578


Q ss_pred             EEEcCCCCcCHHHHHHHHHHH
Q 041042          227 FFSSATYNINVNKILKFITAK  247 (268)
Q Consensus       227 ~~~Sa~~~~~i~~~f~~l~~~  247 (268)
                      +.+||++|.||+++++.|.+.
T Consensus       166 i~vSA~~g~Gid~L~~~i~~~  186 (188)
T d1puia_         166 ETFSSLKKQGVDKLRQKLDTW  186 (188)
T ss_dssp             EECBTTTTBSHHHHHHHHHHH
T ss_pred             EEEeCCCCCCHHHHHHHHHHH
Confidence            999999999999999988654

>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=99.58  E-value=3.8e-15  Score=119.70  Aligned_cols=145  Identities=13%  Similarity=0.132  Sum_probs=92.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC--------CCCC----CCCC---CcceeeEEEEEEECCeEEEEEEEeCCCcccccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD--------EKEQ----GGSP---GEGLNMMDKTLLVRGARISYSIWEVTGDAKAQD  147 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~--------~~~~----~~~~---t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~  147 (268)
                      .++|+++|..++|||||+++|+..        .+..    +..+   .-|.+.....+.+.....+++|+||||++.|..
T Consensus         3 ~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~~   82 (204)
T d2c78a3           3 HVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIK   82 (204)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHH
T ss_pred             CeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhHH
Confidence            589999999999999999999631        0000    0100   002222223333333345578999999999988


Q ss_pred             chhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCce-EEEEeCCCCCCCCCccc-hhchHHHHHHHHHHhC--
Q 041042          148 HLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIP-IIIGTKFDDFIQLPIDL-QWTIASQARAYAKALN--  223 (268)
Q Consensus       148 ~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~--  223 (268)
                      .....++.+|++|+|+|+.+.-..+..+.|.. +...  +.+. ||+.||+|+   +.++. -....++++.+....+  
T Consensus        83 ~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~-~~~~--gi~~iiv~iNK~D~---~~~~~~~~~~~~~i~~~l~~~~~~  156 (204)
T d2c78a3          83 NMITGAAQMDGAILVVSAADGPMPQTREHILL-ARQV--GVPYIVVFMNKVDM---VDDPELLDLVEMEVRDLLNQYEFP  156 (204)
T ss_dssp             HHHHHHTTCSSEEEEEETTTCCCHHHHHHHHH-HHHT--TCCCEEEEEECGGG---CCCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHCCEEEEEEECCCCCcHHHHHHHHH-HHHc--CCCeEEEEEEeccc---CCCHHHHHHHHHHHHHHHHhcCCC
Confidence            88788899999999999987766555444433 3332  3444 467899997   33221 1233566666666554  


Q ss_pred             ---CeEEEEcCCC
Q 041042          224 ---ATLFFSSATY  233 (268)
Q Consensus       224 ---~~~~~~Sa~~  233 (268)
                         ++++..||..
T Consensus       157 ~~~i~~i~~sa~~  169 (204)
T d2c78a3         157 GDEVPVIRGSALL  169 (204)
T ss_dssp             TTTSCEEECCHHH
T ss_pred             cccceeeeeechh
Confidence               4578888753

>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=99.58  E-value=2.3e-14  Score=116.40  Aligned_cols=154  Identities=13%  Similarity=0.100  Sum_probs=96.7

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcC--CCCCC-----------------------------CCCCcceeeEEEEEEEC
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGD--EKEQG-----------------------------GSPGEGLNMMDKTLLVR  128 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~--~~~~~-----------------------------~~~t~~~~~~~~~~~~~  128 (268)
                      ....++|+++|..++|||||+.+|+..  .+...                             ....-|.+.......+.
T Consensus         6 ~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~~   85 (222)
T d1zunb3           6 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS   85 (222)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE
T ss_pred             cCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEEe
Confidence            445789999999999999999999631  11000                             00001111111222222


Q ss_pred             CeEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCc-eEEEEeCCCCCCCCCccc
Q 041042          129 GARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAI-PIIIGTKFDDFIQLPIDL  207 (268)
Q Consensus       129 ~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~~~~~~  207 (268)
                      .....+.+.|+||++.|......-...+|++|+|+|+.+.-.-+....| ..+...  +.+ +|++.||+|+.   ....
T Consensus        86 ~~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~-~~~~~~--gv~~iiv~vNK~D~~---~~~~  159 (222)
T d1zunb3          86 TAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHS-YIASLL--GIKHIVVAINKMDLN---GFDE  159 (222)
T ss_dssp             CSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHH-HHHHHT--TCCEEEEEEECTTTT---TSCH
T ss_pred             ccceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHH-HHHHHc--CCCEEEEEEEccccc---cccc
Confidence            3345688999999999988777778999999999999765433322222 222221  333 46899999973   2222


Q ss_pred             h--hchHHHHHHHHHHhCC-----eEEEEcCCCCcCHHH
Q 041042          208 Q--WTIASQARAYAKALNA-----TLFFSSATYNINVNK  239 (268)
Q Consensus       208 ~--~~~~~~~~~~~~~~~~-----~~~~~Sa~~~~~i~~  239 (268)
                      .  ....+++..+.+..++     +++.+||++|+||.+
T Consensus       160 ~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         160 RVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             eehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            2  2335567777777654     678999999999843

>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=99.42  E-value=2.2e-13  Score=112.14  Aligned_cols=160  Identities=9%  Similarity=0.064  Sum_probs=83.9

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC--CCC---------------------------CCCCCcceeeEEEEEEECCeE
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE--KEQ---------------------------GGSPGEGLNMMDKTLLVRGAR  131 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~--~~~---------------------------~~~~t~~~~~~~~~~~~~~~~  131 (268)
                      ...++|+++|..++|||||+.+|+...  +..                           .....-|..............
T Consensus        22 k~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~  101 (245)
T d1r5ba3          22 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH  101 (245)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS
T ss_pred             CCceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccccc
Confidence            345789999999999999999994210  000                           000000111111111112233


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChh---hHH---HHHHHHHHHHHhCCCCc-eEEEEeCCCCCCC-C
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRC---TLK---SVIRWYQQARKCNQTAI-PIIIGTKFDDFIQ-L  203 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~---s~~---~~~~~~~~i~~~~~~~~-~ilvgnK~Dl~~~-~  203 (268)
                      ..+.+.||||+..|......-...+|++++|+|+.+..   ++.   ...+-+..+...  +.+ +|++.||+|+... .
T Consensus       102 ~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~--~i~~iiv~iNKmD~~~~~~  179 (245)
T d1r5ba3         102 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ--GINHLVVVINKMDEPSVQW  179 (245)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT--TCSSEEEEEECTTSTTCSS
T ss_pred             ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc--CCCeEEEEEEcCCCCccch
Confidence            56889999999999888888888999999999997632   110   111212222222  333 3588899997421 1


Q ss_pred             CccchhchHHHHHHHHHHh-------CCeEEEEcCCCCcCHHHHHH
Q 041042          204 PIDLQWTIASQARAYAKAL-------NATLFFSSATYNINVNKILK  242 (268)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~-------~~~~~~~Sa~~~~~i~~~f~  242 (268)
                      .+.+.....+++..+.++.       .++++.+||++|+||.++++
T Consensus       180 ~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         180 SEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             hHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            2222223344555554443       25789999999999977644

>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=99.40  E-value=2.7e-13  Score=110.18  Aligned_cols=154  Identities=11%  Similarity=0.121  Sum_probs=93.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCC--C-----------------------------CCCCCCCcceeeEEEEEEECCeE
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDE--K-----------------------------EQGGSPGEGLNMMDKTLLVRGAR  131 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~--~-----------------------------~~~~~~t~~~~~~~~~~~~~~~~  131 (268)
                      .++|+++|.-++|||||+.+|+...  .                             .....  -|.+.......++...
T Consensus         3 ~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~--rg~ti~~~~~~~~~~~   80 (224)
T d1jnya3           3 HLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERE--RGVTINLTFMRFETKK   80 (224)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-------------CEEECSS
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhc--CCccccceEEEEecCC
Confidence            5899999999999999999885310  0                             00000  1122222222333445


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhh---H---HHHHHHHHHHHHhCCCCceEEEEeCCCCCCCC-C
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCT---L---KSVIRWYQQARKCNQTAIPIIIGTKFDDFIQL-P  204 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s---~---~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~-~  204 (268)
                      ..+++.||||++.|......-.+-+|++|+|+|+.+...   +   ....+-+..... ....++|++.||+|+...- .
T Consensus        81 ~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~-~~~~~iIv~iNK~D~~~~~~~  159 (224)
T d1jnya3          81 YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKT-MGLDQLIVAVNKMDLTEPPYD  159 (224)
T ss_dssp             CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHH-TTCTTCEEEEECGGGSSSTTC
T ss_pred             ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHH-hCCCceEEEEEcccCCCcccc
Confidence            678999999999999888888999999999999987421   1   111111111221 2233457889999973211 1


Q ss_pred             ccchhchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHH
Q 041042          205 IDLQWTIASQARAYAKALN-----ATLFFSSATYNINVNK  239 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~  239 (268)
                      .........++..+...++     ++++.+||.+|.||.+
T Consensus       160 ~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         160 EKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             HHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            1111223455666666554     4688999999999854

>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=99.39  E-value=2.5e-12  Score=107.07  Aligned_cols=112  Identities=17%  Similarity=0.144  Sum_probs=76.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC--CC-----------CCCCC-----CcceeeEEEEEEECCeEEEEEEEeCCCccccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE--KE-----------QGGSP-----GEGLNMMDKTLLVRGARISYSIWEVTGDAKAQ  146 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~--~~-----------~~~~~-----t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~  146 (268)
                      +|+++|..++|||||+.+++...  ..           .++.+     .+........+.+++  .+++++||||+..|.
T Consensus         8 ni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~--~~~n~iDtPG~~dF~   85 (276)
T d2bv3a2           8 NIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDAPGHVDFT   85 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT--EEEEEECCCSSSSCS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC--eEEEEecCCchhhhH
Confidence            69999999999999999986311  00           00000     011111122333444  558899999999999


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCC
Q 041042          147 DHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFI  201 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~  201 (268)
                      ......++-+|++|+|+|..+.-.-+..+-|-. .+++  +.|.|++.||.|...
T Consensus        86 ~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~-a~~~--~lP~i~fINKmDr~~  137 (276)
T d2bv3a2          86 IEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEKY--KVPRIAFANKMDKTG  137 (276)
T ss_dssp             TTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHH-HHTT--TCCEEEEEECTTSTT
T ss_pred             HHHHHHHHhhhheEEeccccCCcchhHHHHHHH-HHHc--CCCEEEEEecccccc
Confidence            999999999999999999988765555555533 3332  556689999999653

>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=99.37  E-value=5.2e-12  Score=104.78  Aligned_cols=110  Identities=19%  Similarity=0.237  Sum_probs=75.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC--CCC----CCCCC------------cceeeEEEEEEECCeEEEEEEEeCCCccccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE--KEQ----GGSPG------------EGLNMMDKTLLVRGARISYSIWEVTGDAKAQ  146 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~--~~~----~~~~t------------~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~  146 (268)
                      .|+++|..++|||||+.+++...  ...    ....|            +........+..++.  +++++||||+..|.
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~--~~n~iDtPGh~dF~   81 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGH--RVFLLDAPGYGDFV   81 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTE--EEEEEECCCSGGGH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeeccccccccc--ceeEEccCchhhhh
Confidence            58999999999999999985321  100    00000            111122233444554  57899999999999


Q ss_pred             cchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          147 DHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       147 ~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      ......++-+|++|+|+|+.+.-.-+....|.. +.+.  +.|.+++.||+|.
T Consensus        82 ~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~-~~~~--~~p~~i~iNk~D~  131 (267)
T d2dy1a2          82 GEIRGALEAADAALVAVSAEAGVQVGTERAWTV-AERL--GLPRMVVVTKLDK  131 (267)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHHT--TCCEEEEEECGGG
T ss_pred             hhhhhhhcccCceEEEeeccCCccchhHHHHHh-hhhc--ccccccccccccc
Confidence            988889999999999999987766555555543 3332  4456899999995

>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=99.36  E-value=1.9e-12  Score=113.88  Aligned_cols=164  Identities=13%  Similarity=0.124  Sum_probs=90.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcce---eeEEEEEEECCeEEEEEEEeCCCccccccch-----hhhhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGL---NMMDKTLLVRGARISYSIWEVTGDAKAQDHL-----PVACK  154 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~---~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-----~~~~~  154 (268)
                      .++|+|+|.+|||||||+|.|.+...........|.   +.....+...+ .-.+.+|||||........     ...+.
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~-~~~~~l~DtPG~~~~~~~~~~~~~~~~~~  134 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPN-IPNVVFWDLPGIGSTNFPPDTYLEKMKFY  134 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSS-CTTEEEEECCCGGGSSCCHHHHHHHTTGG
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccC-CCeEEEEeCCCcccccccHHHHHHHhhhh
Confidence            589999999999999999999985432221111111   11112222221 1236699999965433222     22356


Q ss_pred             CCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCC------CCCccchhch----HHHHHHHHHHhCC
Q 041042          155 DSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFI------QLPIDLQWTI----ASQARAYAKALNA  224 (268)
Q Consensus       155 ~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~------~~~~~~~~~~----~~~~~~~~~~~~~  224 (268)
                      .+|.+|++.|..-.+.  + ..++..+.+.  +.+.++|.||+|...      ..........    .+......+..++
T Consensus       135 ~~d~~l~~~~~~~~~~--d-~~l~~~l~~~--~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~~~  209 (400)
T d1tq4a_         135 EYDFFIIISATRFKKN--D-IDIAKAISMM--KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGI  209 (400)
T ss_dssp             GCSEEEEEESSCCCHH--H-HHHHHHHHHT--TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTC
T ss_pred             cceEEEEecCCCCCHH--H-HHHHHHHHHc--CCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHcCC
Confidence            7888888877533222  2 1333444443  456679999999410      0000001111    1222223333343


Q ss_pred             ---eEEEEcCCC--CcCHHHHHHHHHHHHhcCc
Q 041042          225 ---TLFFSSATY--NINVNKILKFITAKLFDIP  252 (268)
Q Consensus       225 ---~~~~~Sa~~--~~~i~~~f~~l~~~i~~~~  252 (268)
                         ++|.+|...  ..++.++.+.+.+.+.+.+
T Consensus       210 ~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~~~  242 (400)
T d1tq4a_         210 AEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYK  242 (400)
T ss_dssp             SSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGG
T ss_pred             CCCCEEEecCCcccccCHHHHHHHHHHHhHHHH
Confidence               467788764  4589999999888776543

>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=99.36  E-value=1e-12  Score=107.70  Aligned_cols=151  Identities=9%  Similarity=0.063  Sum_probs=96.0

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcC--CCC---------------C--------------CCCCCcceeeEEEEEEECC
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGD--EKE---------------Q--------------GGSPGEGLNMMDKTLLVRG  129 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~--~~~---------------~--------------~~~~t~~~~~~~~~~~~~~  129 (268)
                      ...++|+++|..++|||||+.+|+..  ...               .              .....+..+.....+..+ 
T Consensus         4 k~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~-   82 (239)
T d1f60a3           4 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETP-   82 (239)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECS-
T ss_pred             CCccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccC-
Confidence            34589999999999999999998521  000               0              000111222222333334 


Q ss_pred             eEEEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhh-------HHHHHHHHHHHHHhCCCCce-EEEEeCCCCCC
Q 041042          130 ARISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCT-------LKSVIRWYQQARKCNQTAIP-IIIGTKFDDFI  201 (268)
Q Consensus       130 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s-------~~~~~~~~~~i~~~~~~~~~-ilvgnK~Dl~~  201 (268)
                       ..+++|.||||+..|......-...+|++|+|+|+.+..-       -+....| ..+...  +.+. |++.||+|+. 
T Consensus        83 -~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~-~~~~~~--gv~~iiv~iNKmD~~-  157 (239)
T d1f60a3          83 -KYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHA-LLAFTL--GVRQLIVAVNKMDSV-  157 (239)
T ss_dssp             -SEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHH-HHHHHT--TCCEEEEEEECGGGG-
T ss_pred             -CEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHH-HHHHHc--CCCeEEEEEECCCCC-
Confidence             4678999999999998887788899999999999975321       0122222 222221  3454 5789999962 


Q ss_pred             CCCccch--hchHHHHHHHHHHhC-----CeEEEEcCCCCcCHHH
Q 041042          202 QLPIDLQ--WTIASQARAYAKALN-----ATLFFSSATYNINVNK  239 (268)
Q Consensus       202 ~~~~~~~--~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~i~~  239 (268)
                        ..+..  ....+++..+....+     ++++.+|+.+|.|+-+
T Consensus       158 --~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         158 --KWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             --TTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             --CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence              22221  233566677777665     4689999999998744

>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=99.24  E-value=1.2e-10  Score=96.19  Aligned_cols=116  Identities=15%  Similarity=0.094  Sum_probs=69.0

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcCC-CCCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCccccccc-------hhhh
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGDE-KEQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDAKAQDH-------LPVA  152 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-------~~~~  152 (268)
                      ...++|+|+|.+|||||||+|.+++.. +.....+....+........++.  .+.++||||-......       ...+
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g~--~i~viDTPGl~~~~~~~~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGF--TLNIIDTPGLIEGGYINDMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETTE--EEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEeccE--EEEEEeeecccCCcchHHHHHHHHHHH
Confidence            456999999999999999999999876 33222222222233344556665  4789999995432111       1111


Q ss_pred             --hcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHh-CCC--CceEEEEeCCCC
Q 041042          153 --CKDSIAILFMFDLTSRC-TLKSVIRWYQQARKC-NQT--AIPIIIGTKFDD  199 (268)
Q Consensus       153 --~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~-~~~--~~~ilvgnK~Dl  199 (268)
                        ....+++++|++++... +-.. ...+..+... ..+  ...|||.||+|+
T Consensus       108 ~~~~~~~~il~v~~~~~~r~~~~~-~~~l~~l~~~fg~~~~~~~ivv~t~~D~  159 (257)
T d1h65a_         108 LLDKTIDVLLYVDRLDAYRVDNLD-KLVAKAITDSFGKGIWNKAIVALTHAQF  159 (257)
T ss_dssp             TTTCEECEEEEEEESSCCCCCHHH-HHHHHHHHHHHCGGGGGGEEEEEECCSC
T ss_pred             HhcCCCCeEEEEEECCCCCCCHHH-HHHHHHHHHHcchhhhhCEEEEEECccc
Confidence              23568888998876532 2221 2223333332 222  345799999997

>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=99.18  E-value=5.1e-11  Score=101.94  Aligned_cols=114  Identities=13%  Similarity=0.200  Sum_probs=78.3

Q ss_pred             eE-EEEEEcCCCChHHHHHHHHhcC--CCC--------------CCCCCCcceeeEEEEEEE--------------CCeE
Q 041042           83 AL-KISLLGDCHIGKTSFLEKYVGD--EKE--------------QGGSPGEGLNMMDKTLLV--------------RGAR  131 (268)
Q Consensus        83 ~~-ki~vlG~~~vGKSsLi~~l~~~--~~~--------------~~~~~t~~~~~~~~~~~~--------------~~~~  131 (268)
                      .+ .|+|+|..++|||||+.+|+..  ...              ......+........+..              +++.
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~   95 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS   95 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSE
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccc
Confidence            45 4999999999999999999621  000              000000111111111211              3456


Q ss_pred             EEEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          132 ISYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      +.++++||||+..|.......++-+|++|+|+|+.+.-..+...-|......   +.|+|++.||+|.
T Consensus        96 ~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~~---~~p~i~viNKiDr  160 (341)
T d1n0ua2          96 FLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGE---RIKPVVVINKVDR  160 (341)
T ss_dssp             EEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHT---TCEEEEEEECHHH
T ss_pred             eEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHHc---CCCeEEEEECccc
Confidence            7899999999999999999999999999999999887666665555554433   4567899999994

>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=99.05  E-value=3.9e-11  Score=97.61  Aligned_cols=112  Identities=10%  Similarity=-0.017  Sum_probs=63.2

Q ss_pred             EEEEEeCCCccccccchh---hhh--cCCcEEEEEEeCC---ChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCC
Q 041042          133 SYSIWEVTGDAKAQDHLP---VAC--KDSIAILFMFDLT---SRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLP  204 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~~~---~~~--~~a~~vilv~D~~---~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~  204 (268)
                      .+.+.|++|+..+.....   ...  ...++++++.|+.   ++..+.........+.. .-..+.++|.||+|+   .+
T Consensus        96 ~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~-~~~~~~ivvinK~D~---~~  171 (244)
T d1yrba1          96 DYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDL-RLGATTIPALNKVDL---LS  171 (244)
T ss_dssp             SEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHH-HHTSCEEEEECCGGG---CC
T ss_pred             ceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHH-HhCCCceeeeecccc---cc
Confidence            478899999876533221   111  2456889999874   33333322211111111 114456899999997   33


Q ss_pred             ccchhchH------------------------HHHHHHHHH--hCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          205 IDLQWTIA------------------------SQARAYAKA--LNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       205 ~~~~~~~~------------------------~~~~~~~~~--~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .+......                        .......+.  ..++++.+||++|+|+++++..|.+..
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         172 EEEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            22111110                        001111111  246889999999999999999887653

>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=98.93  E-value=2.8e-09  Score=88.76  Aligned_cols=84  Identities=12%  Similarity=0.126  Sum_probs=52.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCCCCCCcceeeEEEEEEECCe------------E---EEEEEEeCCCccc---
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQGGSPGEGLNMMDKTLLVRGA------------R---ISYSIWEVTGDAK---  144 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~------------~---~~l~i~Dt~G~~~---  144 (268)
                      .+||-+||.||||||||++++++........|....+-....+.+.+.            +   ..+++.|+||.-.   
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~   81 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcc
Confidence            479999999999999999999987644333332111111122333321            1   3588999999432   


Q ss_pred             -cccchhhh---hcCCcEEEEEEeCC
Q 041042          145 -AQDHLPVA---CKDSIAILFMFDLT  166 (268)
Q Consensus       145 -~~~~~~~~---~~~a~~vilv~D~~  166 (268)
                       -..+...|   ++.||+++.|.|+.
T Consensus        82 ~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          82 KGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             cCCCccHHHHHHHHhccceEEEeecc
Confidence             23455545   57899999999863

>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=98.91  E-value=3.5e-09  Score=89.97  Aligned_cols=86  Identities=9%  Similarity=-0.014  Sum_probs=49.8

Q ss_pred             hhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchh-chHHHHHHHHH-------HhC
Q 041042          152 ACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQW-TIASQARAYAK-------ALN  223 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~-~~~~~~~~~~~-------~~~  223 (268)
                      +...+|.+++|.+....+..+.++.-+-++       .-++|.||+|+    +..... ....+.....+       .+.
T Consensus       164 i~~~aD~~l~v~~P~~Gd~iq~~k~gi~e~-------aDi~VvNKaD~----~~~~~~~~~~~~~~~al~~~~~~~~~w~  232 (327)
T d2p67a1         164 VARMVDCFISLQIAGGGDDLQGIKKGLMEV-------ADLIVINKDDG----DNHTNVAIARHMYESALHILRRKYDEWQ  232 (327)
T ss_dssp             HHTTCSEEEEEECC------CCCCHHHHHH-------CSEEEECCCCT----TCHHHHHHHHHHHHHHHHHSCCSBTTBC
T ss_pred             hhhccceEEEEecCCCchhhhhhchhhhcc-------ccEEEEEeecc----cchHHHHHHHHHHHHHhhhcccCCCCCc
Confidence            456799999998876555444333322222       23888999996    221111 11222222222       223


Q ss_pred             CeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          224 ATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       224 ~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .+++.|||++|+||+++++.|.+..
T Consensus       233 p~V~~~SA~~g~Gi~eL~~~I~~~~  257 (327)
T d2p67a1         233 PRVLTCSALEKRGIDEIWHAIIDFK  257 (327)
T ss_dssp             CEEEECBGGGTBSHHHHHHHHHHHH
T ss_pred             ceeEEEEeeCCCCHHHHHHHHHHHH
Confidence            5789999999999999999987643

>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=98.84  E-value=8.4e-09  Score=87.47  Aligned_cols=101  Identities=13%  Similarity=0.082  Sum_probs=57.8

Q ss_pred             EEEEEeCCCccccccchhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchH
Q 041042          133 SYSIWEVTGDAKAQDHLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIA  212 (268)
Q Consensus       133 ~l~i~Dt~G~~~~~~~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~  212 (268)
                      .+.|..|.|.-.-.   ......+|.+++|......+..+.++.-+-+       ..-|+|.||+|+    ++. .....
T Consensus       145 d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k~gilE-------~aDi~vvNKaD~----~~~-~~~~~  209 (323)
T d2qm8a1         145 DVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKGIFE-------LADMIAVNKADD----GDG-ERRAS  209 (323)
T ss_dssp             CEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTTHHH-------HCSEEEEECCST----TCC-HHHHH
T ss_pred             CeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhhhhHhh-------hhheeeEecccc----ccc-hHHHH
Confidence            45667776642211   2234568999999998876655433321111       123899999996    221 11112


Q ss_pred             HHHHHHHHH----------hCCeEEEEcCCCCcCHHHHHHHHHHHH
Q 041042          213 SQARAYAKA----------LNATLFFSSATYNINVNKILKFITAKL  248 (268)
Q Consensus       213 ~~~~~~~~~----------~~~~~~~~Sa~~~~~i~~~f~~l~~~i  248 (268)
                      .....+...          +..+++.|||++|.|++++++.|.+..
T Consensus       210 ~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~  255 (323)
T d2qm8a1         210 AAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHR  255 (323)
T ss_dssp             HHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHH
Confidence            222222222          345799999999999999999996543

>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=98.67  E-value=2.1e-08  Score=84.89  Aligned_cols=84  Identities=18%  Similarity=0.197  Sum_probs=44.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCCCCCCCC--Cc----ceeeEEEE----------------EEECCeEEEEEEEeCCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEKEQGGSP--GE----GLNMMDKT----------------LLVRGARISYSIWEVTG  141 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~~~~~~~--t~----~~~~~~~~----------------~~~~~~~~~l~i~Dt~G  141 (268)
                      +||.++|.||||||||+|.+++.+......|  |+    |+.+....                .........++++|+||
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            5899999999999999999998765444434  21    22211000                00011336799999999


Q ss_pred             cccc----ccchhhh---hcCCcEEEEEEeCCC
Q 041042          142 DAKA----QDHLPVA---CKDSIAILFMFDLTS  167 (268)
Q Consensus       142 ~~~~----~~~~~~~---~~~a~~vilv~D~~~  167 (268)
                      .-..    ..+...+   ++.+|+++.|+|+.+
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTC
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            4321    2233333   568999999999863

>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=98.62  E-value=8.2e-08  Score=80.37  Aligned_cols=85  Identities=14%  Similarity=0.187  Sum_probs=56.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCe---------------EEEEEEEeCCCccc--
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGA---------------RISYSIWEVTGDAK--  144 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~l~i~Dt~G~~~--  144 (268)
                      .+||.++|.||||||||++.+++... .....|-+..+-....+.+.+.               ...+++.|+||.-.  
T Consensus        10 ~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~gA   89 (296)
T d1ni3a1          10 NLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGA   89 (296)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeecccccccc
Confidence            38999999999999999999997643 2333332222222233444331               24688999998443  


Q ss_pred             --cccchhhh---hcCCcEEEEEEeCCC
Q 041042          145 --AQDHLPVA---CKDSIAILFMFDLTS  167 (268)
Q Consensus       145 --~~~~~~~~---~~~a~~vilv~D~~~  167 (268)
                        -..+...|   ++.||++|.|+|+.+
T Consensus        90 ~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          90 STGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccccccHHHHHHHhhccceeEEEEeccC
Confidence              23333444   589999999999865

>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=98.54  E-value=2.8e-07  Score=76.91  Aligned_cols=114  Identities=18%  Similarity=0.248  Sum_probs=67.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEE-------EE---CC-----------------------
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTL-------LV---RG-----------------------  129 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~-------~~---~~-----------------------  129 (268)
                      -+|+|+|.-++|||||+|.+++..+ .....+++..-......       .+   .+                       
T Consensus        27 P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  106 (299)
T d2akab1          27 PQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTGT  106 (299)
T ss_dssp             CEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHCSS
T ss_pred             CeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhhCC
Confidence            4899999999999999999999885 44444433211110000       00   00                       


Q ss_pred             ----------------eEEEEEEEeCCCcccc-------------ccchhhhhcCCcEE-EEEEeCCChhhHHHHHHHHH
Q 041042          130 ----------------ARISYSIWEVTGDAKA-------------QDHLPVACKDSIAI-LFMFDLTSRCTLKSVIRWYQ  179 (268)
Q Consensus       130 ----------------~~~~l~i~Dt~G~~~~-------------~~~~~~~~~~a~~v-ilv~D~~~~~s~~~~~~~~~  179 (268)
                                      ....+.++|+||-...             ..+...|+...+.+ ++|.+.+..-+-..+..|.+
T Consensus       107 ~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~  186 (299)
T d2akab1         107 NKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAK  186 (299)
T ss_dssp             TTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHH
T ss_pred             CcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHH
Confidence                            0113679999994321             23455677777754 55666655555455555555


Q ss_pred             HHHHhCCCC-ceEEEEeCCCCC
Q 041042          180 QARKCNQTA-IPIIIGTKFDDF  200 (268)
Q Consensus       180 ~i~~~~~~~-~~ilvgnK~Dl~  200 (268)
                      .+   .+.. ..++|.||+|+.
T Consensus       187 ~~---~~~~~r~i~Vltk~D~~  205 (299)
T d2akab1         187 EV---DPQGQRTIGVITKLDLM  205 (299)
T ss_dssp             HH---CTTCSSEEEEEECGGGS
T ss_pred             Hh---CcCCCceeeEEeccccc
Confidence            44   3333 447899999973

>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=98.36  E-value=4.4e-07  Score=75.98  Aligned_cols=25  Identities=36%  Similarity=0.519  Sum_probs=23.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDEK  108 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~~  108 (268)
                      -+|+|+|..++|||||||.+++..+
T Consensus        25 P~ivVvG~~ssGKSSliNaLlG~~~   49 (306)
T d1jwyb_          25 PQIVVVGSQSSGKSSVLENIVGRDF   49 (306)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHTSCC
T ss_pred             CeEEEEeCCCCCHHHHHHHHhCCCC
Confidence            4899999999999999999999876

>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=98.21  E-value=6.7e-07  Score=73.74  Aligned_cols=59  Identities=15%  Similarity=0.348  Sum_probs=35.9

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhcCCC-CCCCCCCcceeeEEEEEEECCeEEEEEEEeCCCcc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVGDEK-EQGGSPGEGLNMMDKTLLVRGARISYSIWEVTGDA  143 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~  143 (268)
                      ....++|+|+|.||||||||+|++.+.+. .....|  |.+.....+..+ .  .+.++||||--
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~p--G~Tr~~~~i~~~-~--~~~l~DTPGi~  168 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRP--GITTSQQWVKVG-K--ELELLDTPGIL  168 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHTSCCC--------------CCEEET-T--TEEEEECCCCC
T ss_pred             CCCceEEEEEecCccchhhhhhhhhccceEEECCcc--cccccceEEECC-C--CeEEecCCCcc
Confidence            34469999999999999999999998763 223333  433332333332 2  27789999953

>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=97.94  E-value=2.4e-06  Score=68.23  Aligned_cols=87  Identities=11%  Similarity=0.093  Sum_probs=61.5

Q ss_pred             hcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEEEcC
Q 041042          153 CKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFFSSA  231 (268)
Q Consensus       153 ~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  231 (268)
                      ..+.|.+++|+++.+++ ++..+.+++-....  .+.+|+||.||+||   .++.......+...+.....|.+.+.+||
T Consensus         8 vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~--~~i~pvIvlnK~DL---~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa   82 (231)
T d1t9ha2           8 ICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA--NDIQPIICITKMDL---IEDQDTEDTIQAYAEDYRNIGYDVYLTSS   82 (231)
T ss_dssp             EECCCEEEEEEESTTTTCCHHHHHHHHHHHHT--TTCEEEEEEECGGG---CCCHHHHHHHHHHHHHHHHHTCCEEECCH
T ss_pred             ccccCEEEEEEECCCCCCCHHHHHHHHHHHHH--cCCCEEEEEecccc---cccHHHHHHHHHHHHHHhhccccceeeec
Confidence            46889999999998764 56777777655443  46788999999997   33322122223334445667999999999


Q ss_pred             CCCcCHHHHHHHH
Q 041042          232 TYNINVNKILKFI  244 (268)
Q Consensus       232 ~~~~~i~~~f~~l  244 (268)
                      +++.|++++...+
T Consensus        83 ~~~~gl~~L~~~l   95 (231)
T d1t9ha2          83 KDQDSLADIIPHF   95 (231)
T ss_dssp             HHHTTCTTTGGGG
T ss_pred             CChhHHHHHHHhh
Confidence            9999998876544

>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=97.92  E-value=2e-05  Score=62.52  Aligned_cols=84  Identities=10%  Similarity=0.109  Sum_probs=59.5

Q ss_pred             hhcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHH--hCCeEEE
Q 041042          152 ACKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKA--LNATLFF  228 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~  228 (268)
                      -..+.|.+++|+.+.+++ +...+.+|+-.+...  +.+|+||.||+||   ..++    ..+....+...  .+.+.+.
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~--~i~pvIvlnK~DL---~~~~----~~~~~~~~~~~~~~~~~v~~   77 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEKN--ELETVMVINKMDL---YDED----DLRKVRELEEIYSGLYPIVK   77 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHT--TCEEEEEECCGGG---CCHH----HHHHHHHHHHHHTTTSCEEE
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHc--CCCEEEEEeCccc---CCHH----HHHHHHHhhcccccceeEEE
Confidence            346889999999988764 566677777665543  6688999999997   3221    12233333333  3478899


Q ss_pred             EcCCCCcCHHHHHHHH
Q 041042          229 SSATYNINVNKILKFI  244 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l  244 (268)
                      +||+++.|++++...+
T Consensus        78 vSa~~~~g~~~L~~~l   93 (225)
T d1u0la2          78 TSAKTGMGIEELKEYL   93 (225)
T ss_dssp             CCTTTCTTHHHHHHHH
T ss_pred             eccccchhHhhHHHHh
Confidence            9999999999987765

>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=97.78  E-value=2e-05  Score=64.67  Aligned_cols=91  Identities=10%  Similarity=-0.004  Sum_probs=62.0

Q ss_pred             hhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCCccchhchHHHHHHHHHHhCCeEEE
Q 041042          149 LPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLPIDLQWTIASQARAYAKALNATLFF  228 (268)
Q Consensus       149 ~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  228 (268)
                      ....++.+|+||.|.|+.++.+..+  ..++.+   -.+.+.|+|.||+||   .+.   . ..++..++.+..+...+.
T Consensus         9 i~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~---~~~Kp~IlVlNK~DL---v~~---~-~~~~w~~~f~~~~~~~i~   76 (273)
T d1puja_           9 VTEKLKLIDIVYELVDARIPMSSRN--PMIEDI---LKNKPRIMLLNKADK---ADA---A-VTQQWKEHFENQGIRSLS   76 (273)
T ss_dssp             HHHHGGGCSEEEEEEETTSTTTTSC--HHHHHH---CSSSCEEEEEECGGG---SCH---H-HHHHHHHHHHTTTCCEEE
T ss_pred             HHHHHHhCCEEEEEEECCCCCCCCC--HHHHHH---HcCCCeEEEEECccC---Cch---H-HHHHHHHHHHhcCCccce
Confidence            3456889999999999988766432  112222   235677899999997   222   1 223333444556788999


Q ss_pred             EcCCCCcCHHHHHHHHHHHHhcC
Q 041042          229 SSATYNINVNKILKFITAKLFDI  251 (268)
Q Consensus       229 ~Sa~~~~~i~~~f~~l~~~i~~~  251 (268)
                      +|++++.++.++...+.+.+.+.
T Consensus        77 isa~~~~~~~~~~~~~~~~l~~~   99 (273)
T d1puja_          77 INSVNGQGLNQIVPASKEILQEK   99 (273)
T ss_dssp             CCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             eecccCCCccccchhhhhhhhhh
Confidence            99999999888887776665544

>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=97.69  E-value=7.6e-06  Score=65.23  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..+++|.+|||||||+|+|.++
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            5679999999999999999875

>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=97.66  E-value=1.4e-05  Score=63.47  Aligned_cols=58  Identities=17%  Similarity=0.114  Sum_probs=33.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCCC-CCCC-----CCCcceeeEEEEEEECCeEEEEEEEeCCCcccc
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDEK-EQGG-----SPGEGLNMMDKTLLVRGARISYSIWEVTGDAKA  145 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~~-~~~~-----~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~  145 (268)
                      ..+++|.+|||||||+|++.++.. ....     ...-..+.....+.+++.   -.++||||-..+
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g---g~iiDTPG~r~~  160 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG---GYVVDTPGFANL  160 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTS---CEEESSCSSTTC
T ss_pred             eEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC---cEEEeCCccccc
Confidence            578999999999999999987531 1111     100111122223344432   247999997654

>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=97.47  E-value=0.00034  Score=55.19  Aligned_cols=21  Identities=29%  Similarity=0.373  Sum_probs=18.8

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+|.|.-|+|||||+++++..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEeeCCCCCHHHHHHHHHhc
Confidence            578899999999999999874

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.42  E-value=0.00014  Score=57.04  Aligned_cols=92  Identities=12%  Similarity=0.158  Sum_probs=54.9

Q ss_pred             EEEEEEeCCCcccccc----chhh---hhc-----CCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          132 ISYSIWEVTGDAKAQD----HLPV---ACK-----DSIAILFMFDLTSR-CTLKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~----~~~~---~~~-----~a~~vilv~D~~~~-~s~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      +.+.++||+|-.....    ....   ..+     ..+-+++|.|.+.. +....+...++.+      .+-=+|.||.|
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~------~~~~lIlTKlD  165 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAV------GLTGITLTKLD  165 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHS------CCCEEEEECCT
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhcc------CCceEEEeecC
Confidence            3578999999433211    1111   122     24678899997543 3344443333322      22259999999


Q ss_pred             CCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          199 DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       199 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      -.         ...-.+-..+...++|+..++  +|++|+++
T Consensus       166 e~---------~~~G~~l~~~~~~~~Pi~~i~--~Gq~v~Dl  196 (211)
T d2qy9a2         166 GT---------AKGGVIFSVADQFGIPIRYIG--VGERIEDL  196 (211)
T ss_dssp             TC---------TTTTHHHHHHHHHCCCEEEEE--CSSSGGGE
T ss_pred             CC---------CCccHHHHHHHHHCCCEEEEe--CCCCcccC
Confidence            41         113456777888999988887  78777654

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.39  E-value=6.1e-05  Score=58.97  Aligned_cols=101  Identities=11%  Similarity=0.187  Sum_probs=59.2

Q ss_pred             EEEEEEeCCCccccccc----hhhhh--------cCCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          132 ISYSIWEVTGDAKAQDH----LPVAC--------KDSIAILFMFDLTSR-CTLKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~----~~~~~--------~~a~~vilv~D~~~~-~s~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      ..+.++||+|...+...    ...+.        ...+-+++|.|.+.. +....+...+..+      .+-=+|.||.|
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~------~~~~lI~TKlD  162 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV------GLTGVIVTKLD  162 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHH------CCSEEEEECTT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhcc------CCceEEEeccC
Confidence            45789999995443221    11111        234678899987654 3444444444433      12258999999


Q ss_pred             CCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHHH----HHHHHHHh
Q 041042          199 DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKIL----KFITAKLF  249 (268)
Q Consensus       199 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~f----~~l~~~i~  249 (268)
                      -...         .-.+-.++...+.|+..++  +|++.+++-    +.+++.++
T Consensus       163 et~~---------~G~~l~~~~~~~~Pi~~i~--~Gq~p~Dl~~~~~~~l~~~ll  206 (207)
T d1okkd2         163 GTAK---------GGVLIPIVRTLKVPIKFVG--VGEGPDDLQPFDPEAFVEALL  206 (207)
T ss_dssp             SSCC---------CTTHHHHHHHHCCCEEEEE--CSSSTTCEEECCHHHHHHHHT
T ss_pred             CCCC---------ccHHHHHHHHHCCCEEEEe--CCCChHhCccCCHHHHHHHHh
Confidence            4211         2335667888999988877  466665542    44444443

>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=97.33  E-value=4.5e-05  Score=57.60  Aligned_cols=22  Identities=36%  Similarity=0.629  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +||+|+|++|+|||||++.+.+
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHh
Confidence            5899999999999999999876

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.28  E-value=0.0017  Score=50.57  Aligned_cols=92  Identities=16%  Similarity=0.159  Sum_probs=55.7

Q ss_pred             EEEEEEeCCCcccccc--c----hhhh--hcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQD--H----LPVA--CKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQ  202 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~--~----~~~~--~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~  202 (268)
                      ..+.++||+|-..+..  .    ...+  .-..+-+++|.|++... ..+.+...+..      ..+-=+|.||.|.   
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~~------~~~~~lI~TKlDe---  165 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQA------SKIGTIIITKMDG---  165 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHH------CTTEEEEEECTTS---
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhcc------cCcceEEEecccC---
Confidence            3588999999644331  1    1111  12456788998876543 33333222221      1222488999993   


Q ss_pred             CCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          203 LPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                            ....-.+-.++...++|+..++  +|++|+++
T Consensus       166 ------t~~~G~~l~~~~~~~lPi~~it--~Gq~v~DL  195 (211)
T d1j8yf2         166 ------TAKGGGALSAVAATGATIKFIG--TGEKIDEL  195 (211)
T ss_dssp             ------CSCHHHHHHHHHTTTCCEEEEE--CSSSTTCE
T ss_pred             ------CCcccHHHHHHHHHCcCEEEEe--CCCCcccC
Confidence                  1225667788889999988877  58887653

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.27  E-value=0.001  Score=51.97  Aligned_cols=92  Identities=17%  Similarity=0.184  Sum_probs=54.0

Q ss_pred             EEEEEEeCCCccccccc----hhhhhc--------CCcEEEEEEeCCCh-hhHHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          132 ISYSIWEVTGDAKAQDH----LPVACK--------DSIAILFMFDLTSR-CTLKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~----~~~~~~--------~a~~vilv~D~~~~-~s~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      +.+.++||+|...+...    ...+.+        ..+-+++|.|.+.. +.+..+...+..      -.+-=+|.||.|
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~------~~~~~lI~TKlD  167 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEA------VNVTGIILTKLD  167 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHHHHHH------SCCCEEEEECGG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhhhhccc------cCCceEEEeccc
Confidence            35789999994433211    111111        14668899997543 233333332222      122359999999


Q ss_pred             CCCCCCccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH
Q 041042          199 DFIQLPIDLQWTIASQARAYAKALNATLFFSSATYNINVNKI  240 (268)
Q Consensus       199 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~  240 (268)
                      ..         ...-.+...+...+.|+..++  +|++++++
T Consensus       168 e~---------~~~G~~l~~~~~~~~Pi~~i~--~Gq~v~Dl  198 (213)
T d1vmaa2         168 GT---------AKGGITLAIARELGIPIKFIG--VGEKAEDL  198 (213)
T ss_dssp             GC---------SCTTHHHHHHHHHCCCEEEEE--CSSSGGGE
T ss_pred             CC---------CcccHHHHHHHHHCCCEEEEe--CCCCcccC
Confidence            31         113456777888999988877  67777654

>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=97.08  E-value=0.00014  Score=54.69  Aligned_cols=22  Identities=23%  Similarity=0.448  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -+|+|.|.+|||||||+++|..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999865

>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=96.94  E-value=0.00023  Score=53.13  Aligned_cols=25  Identities=28%  Similarity=0.295  Sum_probs=22.1

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhc
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ++.++|+|.|.+||||||+.+.|..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            4568999999999999999998864

>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=96.78  E-value=0.00028  Score=52.47  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..||+|+|.+||||||+.+.|..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998854

>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=96.76  E-value=0.00034  Score=51.90  Aligned_cols=20  Identities=25%  Similarity=0.398  Sum_probs=18.6

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      ++|+|.+|+|||||++++..
T Consensus         5 i~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            78999999999999999975

>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=96.61  E-value=0.00042  Score=51.67  Aligned_cols=21  Identities=38%  Similarity=0.735  Sum_probs=18.3

Q ss_pred             EE-EEEcCCCChHHHHHHHHhc
Q 041042           85 KI-SLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki-~vlG~~~vGKSsLi~~l~~  105 (268)
                      || .|+|.+|+|||||+++++.
T Consensus         2 kii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            55 4999999999999999865

>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=96.59  E-value=0.00054  Score=49.94  Aligned_cols=21  Identities=19%  Similarity=0.422  Sum_probs=18.5

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |++.|.+|+|||||++++...
T Consensus         5 Iii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            778999999999999998653

>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=96.57  E-value=0.0012  Score=53.74  Aligned_cols=61  Identities=16%  Similarity=0.232  Sum_probs=40.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcCCCCCC-----CCCCcceeeEEEEEEECCeEEEEEEEeCCCccc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGDEKEQG-----GSPGEGLNMMDKTLLVRGARISYSIWEVTGDAK  144 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~~~~~~-----~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~  144 (268)
                      ..=|.|+|..++|||+|+|++.+..+.-.     ...|.|+-.....+ .++....+.++||.|...
T Consensus        32 v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~-~~~~~~~~~~lDteG~~~   97 (277)
T d1f5na2          32 MVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGLGD   97 (277)
T ss_dssp             EEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCBCC
T ss_pred             EEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec-cCCCCceEEEEecccccc
Confidence            34577999999999999999998763222     23355654432222 244556788999999543

>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=96.57  E-value=0.00061  Score=51.92  Aligned_cols=24  Identities=25%  Similarity=0.254  Sum_probs=21.2

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +.++|+++|.|||||||+.+.|..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999998864

>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=96.55  E-value=0.00059  Score=51.36  Aligned_cols=22  Identities=32%  Similarity=0.394  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +||+|+|.||+||||+.+.+..
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999988754

>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=96.48  E-value=0.00078  Score=51.54  Aligned_cols=25  Identities=16%  Similarity=0.256  Sum_probs=22.1

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcC
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +.++|+|+|.|||||||+...|...
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHH
Confidence            4589999999999999999998653

>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=96.45  E-value=0.00073  Score=51.09  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +||+|+|.||+||||+...|...
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999888653

>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=96.40  E-value=0.00084  Score=50.65  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ++|+|+|.||+||||+.+.|...
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999988643

>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=96.35  E-value=0.00089  Score=49.46  Aligned_cols=20  Identities=15%  Similarity=0.346  Sum_probs=18.3

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |+|.|.+||||||+.++|..
T Consensus         5 I~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            88999999999999999864

>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=96.34  E-value=0.00096  Score=50.38  Aligned_cols=23  Identities=17%  Similarity=0.290  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+||+|+|.+|+||||+.+.|..
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            37999999999999999998865

>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=96.34  E-value=0.011  Score=46.43  Aligned_cols=22  Identities=18%  Similarity=0.202  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+++.|++|+||||+++.+...
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            4899999999999999988654

>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=96.29  E-value=0.001  Score=49.62  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+|.|.+|+|||||+..+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            488999999999999999864

>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=96.29  E-value=0.00097  Score=50.20  Aligned_cols=22  Identities=27%  Similarity=0.320  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +||+++|.||+||||+.+.|..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999988854

>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=96.28  E-value=0.001  Score=51.12  Aligned_cols=22  Identities=27%  Similarity=0.202  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .=|+++|.||||||||.++|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3488999999999999999864

>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=96.26  E-value=0.00096  Score=48.68  Aligned_cols=21  Identities=24%  Similarity=0.335  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+++|.+||||||+.+.+..
T Consensus         4 ~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>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=96.19  E-value=0.00093  Score=50.81  Aligned_cols=22  Identities=27%  Similarity=0.218  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ++|+|+|.+|+||||+.+.|..
T Consensus         4 m~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999988754

>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=96.11  E-value=0.0013  Score=49.42  Aligned_cols=22  Identities=18%  Similarity=0.256  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .=|+++|.+|+||||+.+++..
T Consensus        15 ~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999854

>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=96.09  E-value=0.00077  Score=51.14  Aligned_cols=21  Identities=19%  Similarity=0.442  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+|+|++||||+||+++|...
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            889999999999999999753

>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=96.06  E-value=0.0015  Score=49.04  Aligned_cols=21  Identities=33%  Similarity=0.471  Sum_probs=17.6

Q ss_pred             EEEE-EEcCCCChHHHHHHHHh
Q 041042           84 LKIS-LLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        84 ~ki~-vlG~~~vGKSsLi~~l~  104 (268)
                      +||+ |.|.+||||||+++.+.
T Consensus         1 mkiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4665 56999999999998885

>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=96.03  E-value=0.0016  Score=49.45  Aligned_cols=21  Identities=29%  Similarity=0.544  Sum_probs=19.1

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+|+|++|||||||++++...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            799999999999999998654

>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=96.01  E-value=0.0022  Score=48.80  Aligned_cols=22  Identities=23%  Similarity=0.160  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .-|+|+|.||+||||+.++|..
T Consensus         7 ~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999865

>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=95.99  E-value=0.0013  Score=48.85  Aligned_cols=21  Identities=24%  Similarity=0.240  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +|+++|.+||||||+.+.+..
T Consensus         3 ~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999887743

>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=95.93  E-value=0.0019  Score=51.33  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++|+|.+|+|||||++.+.+-
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            7899999999999999988663

>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=95.83  E-value=0.0022  Score=47.75  Aligned_cols=20  Identities=15%  Similarity=0.165  Sum_probs=17.3

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |+|.|.+||||||+++++..
T Consensus         4 I~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67889999999999998743

>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=95.80  E-value=0.0023  Score=48.26  Aligned_cols=21  Identities=19%  Similarity=0.343  Sum_probs=18.7

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+|+|++|||||||++.+...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            678999999999999998754

>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=95.80  E-value=0.0028  Score=48.05  Aligned_cols=22  Identities=27%  Similarity=0.312  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ++|+|+|.||+||||...++..
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998864

>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=95.80  E-value=0.0023  Score=47.19  Aligned_cols=21  Identities=19%  Similarity=0.222  Sum_probs=18.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      =++|+|.+|+||||+.+.|..
T Consensus         8 iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            356799999999999999865

>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=95.78  E-value=0.0023  Score=49.34  Aligned_cols=22  Identities=27%  Similarity=0.374  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .++++|+.|+|||||++.+.+-
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCChHHHHHHHHhcc
Confidence            4779999999999999998663

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=95.73  E-value=0.0029  Score=48.52  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.++++|++|||||+++..+...
T Consensus        44 ~n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEecCCcccHHHHHHHHHH
Confidence            37899999999999999888654

>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=95.72  E-value=0.0027  Score=50.49  Aligned_cols=21  Identities=19%  Similarity=0.238  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++|+|.+|+|||||++.+.+
T Consensus        30 ~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            789999999999999998865

>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=95.70  E-value=0.0026  Score=50.94  Aligned_cols=21  Identities=19%  Similarity=0.355  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++|+|.+|+|||||++.+.+
T Consensus        43 ~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCChHHHHHHHHhc
Confidence            799999999999999998865

>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=95.69  E-value=0.0028  Score=50.73  Aligned_cols=21  Identities=19%  Similarity=0.224  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++|+|.+|+|||||++.+.+
T Consensus        42 ~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            789999999999999998865

>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=95.68  E-value=0.0029  Score=46.81  Aligned_cols=21  Identities=24%  Similarity=0.249  Sum_probs=18.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |++.|.+|+||||+.+.+...
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999888653

>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=95.68  E-value=0.0028  Score=49.96  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++++|++|+|||||++.+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            5789999999999999988764

>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=95.67  E-value=0.0028  Score=48.28  Aligned_cols=20  Identities=30%  Similarity=0.502  Sum_probs=18.3

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |+|+|++|||||||+++|..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999854

>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=95.63  E-value=0.0028  Score=49.95  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=19.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+.++|++|+|||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCcchhhHhccCC
Confidence            5789999999999999977653

>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=95.62  E-value=0.003  Score=48.91  Aligned_cols=21  Identities=14%  Similarity=0.243  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+|+|++|||||||++++...
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            679999999999999999754

>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=95.61  E-value=0.0031  Score=49.95  Aligned_cols=22  Identities=41%  Similarity=0.486  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++++|+.|+|||||++.+.+-
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4679999999999999998774

>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=95.59  E-value=0.0031  Score=51.31  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++|+|..|+|||||++.+.+-
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            6889999999999999998764

>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=95.59  E-value=0.0027  Score=46.97  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +|+++|.+||||||+.+.+..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999888744

>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=95.56  E-value=0.0034  Score=46.33  Aligned_cols=21  Identities=24%  Similarity=0.273  Sum_probs=17.2

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+|.|.+|+||||+.+.|...
T Consensus         6 I~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            445599999999999998653

>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=95.49  E-value=0.0036  Score=49.54  Aligned_cols=22  Identities=36%  Similarity=0.404  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+.++|++|+|||||++.+.+-
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4789999999999999988774

>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=95.47  E-value=0.0046  Score=45.62  Aligned_cols=23  Identities=22%  Similarity=0.215  Sum_probs=19.6

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+-|.++|.+||||||+.+.|..
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            47788999999999999887753

>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=95.46  E-value=0.0039  Score=50.28  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.++++|++|||||+++..+...
T Consensus        40 ~n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          40 NNPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEECCCCCcHHHHHHHHHHH
Confidence            37899999999999999888654

>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=95.43  E-value=0.0027  Score=50.57  Aligned_cols=22  Identities=27%  Similarity=0.224  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|++.|+||+|||+|++.+.+.
T Consensus        34 ~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          34 AFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             EEEEECCTTSCTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3889999999999999998664

>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=95.41  E-value=0.0039  Score=47.42  Aligned_cols=21  Identities=38%  Similarity=0.349  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -|+|+|.||+||||+...+..
T Consensus        10 iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999865

>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=95.35  E-value=0.0034  Score=49.38  Aligned_cols=22  Identities=41%  Similarity=0.487  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -++++|++|+|||||++.+.+-
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4789999999999999999774

>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=95.29  E-value=0.0045  Score=46.01  Aligned_cols=20  Identities=20%  Similarity=0.218  Sum_probs=17.7

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |+++|.+||||||+.+.+..
T Consensus         5 Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999988843

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=95.27  E-value=0.0028  Score=50.77  Aligned_cols=21  Identities=14%  Similarity=0.300  Sum_probs=18.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++|+|.+|+|||||++.+.+
T Consensus        46 ~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCCcHHHHHHHHHh
Confidence            789999999999999987654

>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=95.25  E-value=0.0042  Score=49.22  Aligned_cols=22  Identities=14%  Similarity=0.152  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+.++|.+|+|||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4789999999999999988663

>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=95.23  E-value=0.0042  Score=48.75  Aligned_cols=22  Identities=23%  Similarity=0.387  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+++.|+||+||||+++.+.+.
T Consensus        37 ~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          37 HLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999988653

>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=95.21  E-value=0.005  Score=48.76  Aligned_cols=22  Identities=36%  Similarity=0.387  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+.++|++|+|||||++.+.+-
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            5789999999999999988764

>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=95.15  E-value=0.0036  Score=47.10  Aligned_cols=23  Identities=22%  Similarity=0.130  Sum_probs=19.9

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..-|.++|.+|+||||+.+.|..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46788999999999999998854

>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=95.13  E-value=0.0051  Score=46.71  Aligned_cols=20  Identities=35%  Similarity=0.331  Sum_probs=18.2

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |+|+|.||+||||+..++..
T Consensus        11 I~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_          11 IFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77899999999999999865

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=95.07  E-value=0.0042  Score=48.99  Aligned_cols=21  Identities=29%  Similarity=0.575  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -+.++|+.|+|||||++.+.+
T Consensus        27 i~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            478999999999999999987

>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=95.06  E-value=0.0062  Score=47.00  Aligned_cols=24  Identities=17%  Similarity=0.288  Sum_probs=20.7

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhc
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +.++|+|-|++||||||+...+..
T Consensus         2 k~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           2 KTIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            357889999999999999998854

>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=95.04  E-value=0.0051  Score=48.16  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+++.|+||+|||++++.+...
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHhc
Confidence            4899999999999999988653

>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=95.00  E-value=0.0054  Score=48.54  Aligned_cols=21  Identities=24%  Similarity=0.276  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -|+|.|.+|+|||||++++..
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            477999999999999999864

>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=94.96  E-value=0.006  Score=48.31  Aligned_cols=22  Identities=32%  Similarity=0.440  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+.++|+.|+|||||++.+.+-
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3679999999999999998764

>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=94.88  E-value=0.0089  Score=44.83  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+=|.|-|.+|+|||||.++|..
T Consensus        22 ~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          22 RLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            46688999999999999999864

>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=94.88  E-value=0.018  Score=42.30  Aligned_cols=23  Identities=26%  Similarity=0.374  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .=|++-|+=|+|||||++.++..
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEecCCCccHHHHHHHHHhh
Confidence            45889999999999999998764

>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=94.82  E-value=0.0045  Score=49.08  Aligned_cols=22  Identities=32%  Similarity=0.585  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+.++|.+|+|||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            5789999999999999998774

>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=94.81  E-value=0.0072  Score=47.79  Aligned_cols=22  Identities=27%  Similarity=0.231  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+.++|+.|+|||||++.+.+-
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3679999999999999998775

>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=94.67  E-value=0.0081  Score=48.08  Aligned_cols=22  Identities=32%  Similarity=0.356  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+.|+|.+|+|||||++.+.+-
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            5789999999999999988653

>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=94.62  E-value=0.0085  Score=47.27  Aligned_cols=23  Identities=35%  Similarity=0.286  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -.++|.|++|+|||++++.+...
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999988653

>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=94.60  E-value=0.0084  Score=47.87  Aligned_cols=22  Identities=18%  Similarity=0.309  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -+.++|+.|+|||||++.+.+-
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHCC
Confidence            3689999999999999998764

>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=94.53  E-value=0.0081  Score=49.32  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|+++|+||||||.|.+.+...
T Consensus        51 ~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          51 NILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHhhc
Confidence            4789999999999999998653

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=94.50  E-value=0.0085  Score=47.56  Aligned_cols=22  Identities=32%  Similarity=0.412  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..|++.|++|+|||+|++.+.+
T Consensus        41 ~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          41 VSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHhh
Confidence            5699999999999999999865

>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=94.49  E-value=0.0088  Score=46.54  Aligned_cols=22  Identities=18%  Similarity=0.237  Sum_probs=19.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+++.|++|+|||++++.+...
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999988664

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.45  E-value=0.0088  Score=47.07  Aligned_cols=22  Identities=27%  Similarity=0.246  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+++.|++|+||||+++.+...
T Consensus        54 ~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          54 AAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998764

>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=94.29  E-value=0.012  Score=44.36  Aligned_cols=26  Identities=19%  Similarity=0.411  Sum_probs=22.0

Q ss_pred             CceeEEEEEEcCCCChHHHHHHHHhc
Q 041042           80 NLVALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        80 ~~~~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..+.+=|+|-|..||||||+++.|..
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHH
Confidence            44457899999999999999998864

>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=94.12  E-value=0.007  Score=48.09  Aligned_cols=21  Identities=29%  Similarity=0.349  Sum_probs=17.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++.|+||+|||++++.+...
T Consensus        49 l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHH
Confidence            445699999999999998653

>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=93.84  E-value=0.014  Score=46.25  Aligned_cols=21  Identities=29%  Similarity=0.456  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|++.|++|+|||+|++.+.+
T Consensus        44 giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHH
Confidence            489999999999999999975

>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=93.76  E-value=0.015  Score=45.15  Aligned_cols=21  Identities=24%  Similarity=0.267  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++.|++|+||||+++.+...
T Consensus        36 lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            899999999999999988753

>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=93.71  E-value=0.021  Score=43.71  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +-|.|-|.+|+|||||.+.|..
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6788999999999999998743

>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=93.61  E-value=0.022  Score=46.99  Aligned_cols=23  Identities=17%  Similarity=0.319  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..|+|.|..|+|||||++.++..
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGG
T ss_pred             CCEEEEeeccccchHHHHHHhhh
Confidence            35999999999999999999764

>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=93.59  E-value=0.018  Score=44.44  Aligned_cols=22  Identities=23%  Similarity=0.258  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+++.|++|+||||+++.+...
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHHH
Confidence            4899999999999999887643

>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=93.56  E-value=0.013  Score=49.56  Aligned_cols=20  Identities=30%  Similarity=0.512  Sum_probs=17.0

Q ss_pred             EEEEEcCCCChHHHHHHHHh
Q 041042           85 KISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~  104 (268)
                      .+++||++|||||+++..|.
T Consensus        45 n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          45 NPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             CCEEEECTTSCHHHHHHHHH
T ss_pred             CCeEECCCCCCHHHHHHHHH
Confidence            46999999999999986554

>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=93.49  E-value=0.017  Score=44.60  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+++.|++|+|||++++.+...
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            4899999999999999998764

>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=93.46  E-value=0.021  Score=43.32  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=18.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -|+|-|..||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999988753

>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=93.44  E-value=0.019  Score=43.95  Aligned_cols=20  Identities=20%  Similarity=0.313  Sum_probs=17.1

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |+|.|+||+||+|+...+..
T Consensus         6 I~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56679999999999988855

>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=93.27  E-value=0.02  Score=45.61  Aligned_cols=21  Identities=24%  Similarity=0.368  Sum_probs=19.2

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+++.|++|+|||++++.+..
T Consensus        47 ~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          47 GVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEeeCCCCCCccHHHHHHHH
Confidence            589999999999999999875

>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=93.25  E-value=0.02  Score=45.53  Aligned_cols=22  Identities=27%  Similarity=0.270  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .|++.|++|+|||+|++.+...
T Consensus        40 giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          40 GILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eeEEecCCCCCchHHHHHHHHH
Confidence            5899999999999999998763

>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=93.17  E-value=0.024  Score=43.60  Aligned_cols=23  Identities=26%  Similarity=0.258  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      ..=|.+.|.+|+|||||.+.|..
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999998854

>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=92.79  E-value=0.03  Score=42.13  Aligned_cols=23  Identities=17%  Similarity=0.249  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      =+.|.|++|+|||+|...+..+-
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            46799999999999999987653

>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=92.65  E-value=0.032  Score=42.90  Aligned_cols=101  Identities=10%  Similarity=0.167  Sum_probs=55.2

Q ss_pred             EEEEEEeCCCccccccc----hhhh--hcCCcEEEEEEeCCChh-hHHHHHHHHHHHHHhCCCCceEEEEeCCCCCCCCC
Q 041042          132 ISYSIWEVTGDAKAQDH----LPVA--CKDSIAILFMFDLTSRC-TLKSVIRWYQQARKCNQTAIPIIIGTKFDDFIQLP  204 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~~----~~~~--~~~a~~vilv~D~~~~~-s~~~~~~~~~~i~~~~~~~~~ilvgnK~Dl~~~~~  204 (268)
                      ..+.++||+|...+...    ...+  ..+.+-+++|.|.+... ..+.+..+.+.+      .+-=+|.||.|-     
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~------~~~~~I~TKlDe-----  161 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV------GVTGLVLTKLDG-----  161 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT------CCCEEEEECGGG-----
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC------CCCeeEEeecCc-----
Confidence            35789999995443221    1111  23567889999976543 333333332222      112389999993     


Q ss_pred             ccchhchHHHHHHHHHHhCCeEEEEcCCCCcCHHHH----HHHHHHHHh
Q 041042          205 IDLQWTIASQARAYAKALNATLFFSSATYNINVNKI----LKFITAKLF  249 (268)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~----f~~l~~~i~  249 (268)
                        ..  ..-.+..++...+.|+..++  +|+..+++    -+.+++.++
T Consensus       162 --~~--~~G~~l~~~~~~~~Pi~~i~--~Gq~pedl~~~~~~~l~~~lL  204 (207)
T d1ls1a2         162 --DA--RGGAALSARHVTGKPIYFAG--VSEKPEGLEPFYPERLAGRIL  204 (207)
T ss_dssp             --CS--SCHHHHHHHHHHCCCEEEEC--------CCEECCHHHHHHHHT
T ss_pred             --cc--cchHHHHHHHHHCCCEEEEe--CCCChhhcccCCHHHHHHHHh
Confidence              11  23556777888999987775  45555544    244555544

>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=92.64  E-value=0.027  Score=45.23  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .-|.|.|.+|+|||||+..+.+.
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999987653

>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=92.54  E-value=0.026  Score=45.11  Aligned_cols=22  Identities=18%  Similarity=0.252  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      -|++.|++|+|||+|++.+.+.
T Consensus        43 giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          43 GVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             EEEEBCCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcchhHHHHHHHH
Confidence            5999999999999999998664

>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=92.38  E-value=0.031  Score=43.69  Aligned_cols=20  Identities=25%  Similarity=0.248  Sum_probs=17.6

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      +++.|++|+|||++++.+..
T Consensus        37 ~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          37 YLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            78899999999999988754

>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=92.37  E-value=0.033  Score=42.93  Aligned_cols=23  Identities=17%  Similarity=0.267  Sum_probs=19.7

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      =++|.|++|+|||+|...|..+-
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            46799999999999999987653

>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=92.32  E-value=0.046  Score=40.84  Aligned_cols=24  Identities=17%  Similarity=0.199  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhcC
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      .+=|.|.|.+||||||+.+.|...
T Consensus         3 p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC
Confidence            467889999999999999988543

>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=92.15  E-value=0.018  Score=47.55  Aligned_cols=20  Identities=20%  Similarity=0.388  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHHh
Q 041042           85 KISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~  104 (268)
                      .|+++|++|+|||+|++++.
T Consensus        30 ~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHH
Confidence            68999999999999999885

>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=92.13  E-value=0.031  Score=48.12  Aligned_cols=21  Identities=24%  Similarity=0.474  Sum_probs=19.4

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +|+++|++|||||-|++++..
T Consensus        51 NILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999854

>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=92.09  E-value=0.044  Score=40.90  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .=|++.|++|+||||+.-.+....
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            458999999999999999987654

>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=92.07  E-value=0.037  Score=43.00  Aligned_cols=23  Identities=17%  Similarity=0.180  Sum_probs=19.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      =++|.|++|+|||+|..+|..+-
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999987654

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=92.00  E-value=0.01  Score=44.42  Aligned_cols=18  Identities=28%  Similarity=0.512  Sum_probs=16.0

Q ss_pred             EEEcCCCChHHHHHHHHh
Q 041042           87 SLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        87 ~vlG~~~vGKSsLi~~l~  104 (268)
                      +|+|..|+|||||+..+.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            478999999999999974

>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=91.82  E-value=0.052  Score=40.54  Aligned_cols=24  Identities=21%  Similarity=0.356  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .=|++.|.+|+|||++.-.+....
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~G   39 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINKN   39 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC
Confidence            458999999999999999987654

>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=91.78  E-value=0.043  Score=41.76  Aligned_cols=20  Identities=30%  Similarity=0.175  Sum_probs=17.5

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |++-|..||||||+++.|..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77889999999999998754

>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=91.68  E-value=0.045  Score=42.41  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=19.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      =++|.|++|+|||+|+.++..+
T Consensus        28 l~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          28 IILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            5789999999999999998765

>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=91.33  E-value=0.048  Score=41.95  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=18.9

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +.+.|++|+|||.|++.+...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999998664

>d1mlda1 c.2.1.5 (A:1-144) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=91.18  E-value=0.66  Score=32.92  Aligned_cols=48  Identities=13%  Similarity=0.064  Sum_probs=33.9

Q ss_pred             hhhcCCcEEEEEEeCC-----Chh-----hHHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          151 VACKDSIAILFMFDLT-----SRC-----TLKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~-----~~~-----s~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      ..++++|++++..-..     ++.     ...-++++.+.+.+++++...++|.|=.|
T Consensus        64 ~~~~~aDivVitag~~~~~g~sR~~ll~~N~~i~~~i~~~i~~~~p~~iiivvtNPvD  121 (144)
T d1mlda1          64 DCLKGCDVVVIPAGVPRKPGMTRDDLFNTNATIVATLTAACAQHCPDAMICIISNPVN  121 (144)
T ss_dssp             HHHTTCSEEEECCSCCCCTTCCGGGGHHHHHHHHHHHHHHHHHHCTTSEEEECSSCHH
T ss_pred             HHhCCCCEEEECCCcCCCCCCCcchHHHHHHHHHHHHHHHHHhcCCCeEEEEecCchh
Confidence            3468899998886532     111     12334577888888998888889999888

>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=91.13  E-value=0.038  Score=42.71  Aligned_cols=21  Identities=33%  Similarity=0.528  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .|+|-|..||||||+++.|..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998765

>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=91.05  E-value=0.055  Score=41.58  Aligned_cols=22  Identities=18%  Similarity=0.208  Sum_probs=19.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      =++|.|++|+|||+|...+..+
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4678999999999999998754

>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=90.89  E-value=0.065  Score=39.67  Aligned_cols=24  Identities=21%  Similarity=0.343  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcCC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      .=|++.|++|+|||++.-.+....
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            568999999999999998887654

>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=90.88  E-value=0.054  Score=41.47  Aligned_cols=20  Identities=35%  Similarity=0.315  Sum_probs=16.6

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |+|-|..||||||+++.+..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            66779999999998887644

>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=90.73  E-value=0.088  Score=42.86  Aligned_cols=23  Identities=22%  Similarity=0.365  Sum_probs=20.0

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHh
Q 041042           82 VALKISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~  104 (268)
                      ..+=|.|.|.+|||||||.+.+.
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHH
Confidence            35889999999999999988774

>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=90.54  E-value=0.074  Score=41.09  Aligned_cols=23  Identities=17%  Similarity=0.239  Sum_probs=20.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhcCC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGDE  107 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~~  107 (268)
                      =++|.|++|+|||+|..+|..+.
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999997643

>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=90.50  E-value=0.11  Score=39.33  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      +-|.|.|..|+||||+.+.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5688999999999999998754

>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=90.49  E-value=0.061  Score=44.91  Aligned_cols=21  Identities=19%  Similarity=0.200  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -+++.|+||+|||+|.+.+.+
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998764

>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=90.47  E-value=0.069  Score=43.62  Aligned_cols=21  Identities=19%  Similarity=0.251  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -++++|++|||||.|.+.+..
T Consensus        54 ~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          54 SFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCcchhHHHHHHHHh
Confidence            588999999999999998754

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=90.45  E-value=0.04  Score=44.35  Aligned_cols=17  Identities=18%  Similarity=0.475  Sum_probs=15.8

Q ss_pred             EEEcCCCChHHHHHHHH
Q 041042           87 SLLGDCHIGKTSFLEKY  103 (268)
Q Consensus        87 ~vlG~~~vGKSsLi~~l  103 (268)
                      +++|..|+|||+++.++
T Consensus        28 vlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEECCTTTCSTHHHHHH
T ss_pred             EEECCCCCcHHHHHHHH
Confidence            78999999999999877

>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=90.05  E-value=0.076  Score=44.36  Aligned_cols=21  Identities=29%  Similarity=0.368  Sum_probs=18.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .++++|++|||||-|.+++..
T Consensus        70 niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          70 NILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             ceeeeCCCCccHHHHHHHHHh
Confidence            599999999999999998853

>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=90.03  E-value=0.11  Score=39.58  Aligned_cols=23  Identities=17%  Similarity=0.302  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +-|.|.|..|+||||+.+.|...
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~   26 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADL   26 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEECCCcCCHHHHHHHHHHC
Confidence            45779999999999999988644

>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=89.82  E-value=0.082  Score=40.27  Aligned_cols=21  Identities=24%  Similarity=0.297  Sum_probs=17.8

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      =++|.|++|+|||+|...+..
T Consensus        28 ~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            577889999999999887654

>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=89.82  E-value=0.075  Score=43.55  Aligned_cols=21  Identities=19%  Similarity=0.294  Sum_probs=17.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +++.|+||+|||.|.+.+.+.
T Consensus       126 ~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHH
Confidence            445699999999999998653

>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=89.55  E-value=0.09  Score=40.60  Aligned_cols=21  Identities=24%  Similarity=0.593  Sum_probs=18.5

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -|+|=|.-||||||+++.+..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            477889999999999998864

>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=89.45  E-value=0.12  Score=42.63  Aligned_cols=25  Identities=24%  Similarity=0.222  Sum_probs=22.0

Q ss_pred             eeEEEEEEcCCCChHHHHHHHHhcC
Q 041042           82 VALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      ..++|+|=|.-||||||+++.+...
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            3589999999999999999988663

>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=89.31  E-value=0.076  Score=43.72  Aligned_cols=26  Identities=35%  Similarity=0.485  Sum_probs=22.6

Q ss_pred             ceeEEEEEEcCCCChHHHHHHHHhcC
Q 041042           81 LVALKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        81 ~~~~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      +..++|+|=|.-||||||+++.+...
T Consensus         3 m~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           3 MGVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999998653

>d1y7ta1 c.2.1.5 (A:0-153) Malate dehydrogenase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Thermus thermophilus [TaxId: 274]

Probab=89.11  E-value=0.6  Score=33.43  Aligned_cols=48  Identities=15%  Similarity=0.088  Sum_probs=31.9

Q ss_pred             hhhcCCcEEEEEEeCCCh-----hh-----HHHHHHHHHHHHHhCCC-CceEEEEeCCC
Q 041042          151 VACKDSIAILFMFDLTSR-----CT-----LKSVIRWYQQARKCNQT-AIPIIIGTKFD  198 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~-----~s-----~~~~~~~~~~i~~~~~~-~~~ilvgnK~D  198 (268)
                      ..++++|++|+.......     ..     ..-++.+...+.++.+. ..+++|.|-+|
T Consensus        76 ~~~~~advViitaG~~~~pg~~r~dl~~~N~~i~~~~~~~i~k~a~~~~~vivvsNPvD  134 (154)
T d1y7ta1          76 VAFKDADYALLVGAAPRKAGMERRDLLQVNGKIFTEQGRALAEVAKKDVKVLVVGNPAN  134 (154)
T ss_dssp             HHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHH
T ss_pred             hhcccccEEEeecCcCCCCCCcHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEecCcHH
Confidence            457899999998865422     11     23344677778887764 44567888888

>d1guza1 c.2.1.5 (A:1-142) Malate dehydrogenase {Chlorobium vibrioforme [TaxId: 1098]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Chlorobium vibrioforme [TaxId: 1098]

Probab=88.97  E-value=0.93  Score=31.84  Aligned_cols=47  Identities=15%  Similarity=0.146  Sum_probs=30.6

Q ss_pred             hhcCCcEEEEEEeCCChh---hH-------HHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          152 ACKDSIAILFMFDLTSRC---TL-------KSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~---s~-------~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      .+.++|.+++..-.....   ..       .-+..+.+.+.+++++...+++.|=+|
T Consensus        66 ~~~dadvvvitag~~~~~g~~r~~l~~~N~~i~~~i~~~i~~~~p~aivivvtNPvd  122 (142)
T d1guza1          66 DTANSDIVIITAGLPRKPGMTREDLLMKNAGIVKEVTDNIMKHSKNPIIIVVSNPLD  122 (142)
T ss_dssp             GGTTCSEEEECCSCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHCSSCEEEECCSSHH
T ss_pred             HhcCCeEEEEEEecCCCCCCchHHHHHHHHHHHHHHHHHhhccCCCeEEEEecCChH
Confidence            467889888876432111   11       223467777888888887778888777

>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=88.95  E-value=0.11  Score=41.08  Aligned_cols=75  Identities=9%  Similarity=0.043  Sum_probs=36.0

Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHHhCCCCceEEE--EeCCCCCCCCCcc--chhchHHHHHHHHHHhCCeEEEEcCCC
Q 041042          158 AILFMFDLTSRCTLKSVIRWYQQARKCNQTAIPIII--GTKFDDFIQLPID--LQWTIASQARAYAKALNATLFFSSATY  233 (268)
Q Consensus       158 ~vilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~ilv--gnK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~  233 (268)
                      ..+.+++.....+...+...+........ ...|+|  .+..+-.......  .......++..+|++++++++-++-.+
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~l~~lA~~~~i~vi~~~q~~  197 (277)
T d1cr2a_         119 DTFHLYDSFAEAETDRLLAKLAYMRSGLG-CDVIILDHISIVVSASGESDERKMIDNLMTKLKGFAKSTGVVLVVICHLK  197 (277)
T ss_dssp             SCEEEECCC-CCCHHHHHHHHHHHHHTTC-CSEEEEEEEEC----------CHHHHHHHHHHHHHHHHHCCEEEEEEECC
T ss_pred             ceeeeeccccchhHHHHHHHhhhhhhccC-cceEEEcccccccccccccchhHHHHHHHHHHHHHhhhccccceeecccc
Confidence            45566766555555555555544433221 112222  1333211000111  112235778999999999998887554

>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=88.81  E-value=0.12  Score=39.32  Aligned_cols=21  Identities=5%  Similarity=0.064  Sum_probs=18.6

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -+++.|++|+|||+++..+..
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999997755

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=88.65  E-value=0.13  Score=42.16  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .++|+|=|.-||||||+++.+..
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC
T ss_pred             ceEEEEECCcCCCHHHHHHHHHH
Confidence            47899999999999999998854

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.65  E-value=0.1  Score=43.58  Aligned_cols=19  Identities=21%  Similarity=0.445  Sum_probs=16.4

Q ss_pred             EEEEcCCCChHHHHHHHHh
Q 041042           86 ISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~  104 (268)
                      -+|+|+.|+|||+++.++.
T Consensus        28 ~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            3588999999999999873

>d1pzga1 c.2.1.5 (A:14-163) Lactate dehydrogenase {Toxoplasma gondii [TaxId: 5811]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Toxoplasma gondii [TaxId: 5811]

Probab=88.60  E-value=0.52  Score=33.88  Aligned_cols=48  Identities=21%  Similarity=0.186  Sum_probs=33.7

Q ss_pred             hhhcCCcEEEEEEeCC----------Ch-hh----HHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          151 VACKDSIAILFMFDLT----------SR-CT----LKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~----------~~-~s----~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      ..++++|++++..-..          ++ +-    ..-+..+.+.+.+++++...+++-|=+|
T Consensus        72 ~~~~~adiVvitag~~~~~g~~~~~~tR~~l~~~n~~iv~~i~~~i~~~~p~aiviivsNPvd  134 (154)
T d1pzga1          72 AALTGADCVIVTAGLTKVPGKPDSEWSRNDLLPFNSKIIREIGQNIKKYCPKTFIIVVTNPLD  134 (154)
T ss_dssp             HHHTTCSEEEECCSCSSCTTCCGGGCCGGGGHHHHHHHHHHHHHHHHHHCTTCEEEECCSSHH
T ss_pred             hhhcCCCeEEEecccccCCCCCCcccchhhhhhhhHHHHHHHHHHHHhcCCCcEEEEeCCcHH
Confidence            3467899888877432          12 21    2235578888889999988888888887

>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=88.45  E-value=0.049  Score=43.95  Aligned_cols=19  Identities=21%  Similarity=0.389  Sum_probs=14.5

Q ss_pred             EEEEcCCCChHHHHHHHHh
Q 041042           86 ISLLGDCHIGKTSFLEKYV  104 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~  104 (268)
                      |.|.|.+|+||||+.++|.
T Consensus         7 IgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             EEEESCC---CCTHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            8999999999999998874

>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=88.03  E-value=0.13  Score=40.50  Aligned_cols=20  Identities=15%  Similarity=0.134  Sum_probs=17.3

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      .+|.|.+|+|||+|+-.+..
T Consensus        32 ~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            66999999999999987753

>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=87.91  E-value=0.14  Score=41.08  Aligned_cols=22  Identities=18%  Similarity=0.237  Sum_probs=20.1

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+.|+|.+|+|||+|+..+..+
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHH
Confidence            9999999999999999888764

>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=87.75  E-value=0.14  Score=39.09  Aligned_cols=20  Identities=25%  Similarity=0.129  Sum_probs=17.6

Q ss_pred             EEEEcCCCChHHHHHHHHhc
Q 041042           86 ISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~  105 (268)
                      |++-|..||||||+++.|..
T Consensus         6 I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            78999999999999988753

>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=87.75  E-value=0.2  Score=40.18  Aligned_cols=22  Identities=23%  Similarity=0.073  Sum_probs=18.8

Q ss_pred             eeEEEEEEcCCCChHHHHHHHH
Q 041042           82 VALKISLLGDCHIGKTSFLEKY  103 (268)
Q Consensus        82 ~~~ki~vlG~~~vGKSsLi~~l  103 (268)
                      ..+=|.|-|.+|+|||||...+
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l   47 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQI   47 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHH
Confidence            3578889999999999998765

>d1ez4a1 c.2.1.5 (A:16-162) Lactate dehydrogenase {Lactobacillus pentosus [TaxId: 1589]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Lactobacillus pentosus [TaxId: 1589]

Probab=87.37  E-value=0.42  Score=34.07  Aligned_cols=47  Identities=13%  Similarity=0.183  Sum_probs=30.6

Q ss_pred             hhcCCcEEEEEEeCCChh---h-------HHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          152 ACKDSIAILFMFDLTSRC---T-------LKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~~~---s-------~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      -+++||++++........   .       -.-++.+...+.+++++...|++.|=+|
T Consensus        69 ~~~~adivvitag~~~~~g~~r~~l~~~N~~i~~~~~~~i~~~~p~aivivvtNPvd  125 (146)
T d1ez4a1          69 DCKDADLVVITAGAPQKPGESRLDLVNKNLNILSSIVKPVVDSGFDGIFLVAANPVD  125 (146)
T ss_dssp             GGTTCSEEEECCCC----------CHHHHHHHHHHHHHHHHHTTCCSEEEECSSSHH
T ss_pred             HhccccEEEEecccccCCCCCHHHHHHHHHHHHHHHHHHHhhcCCCcEEEEeCCccH
Confidence            467899888876432211   1       2234577888888888887778887777

>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=86.52  E-value=0.15  Score=42.99  Aligned_cols=22  Identities=18%  Similarity=0.240  Sum_probs=19.0

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -+++|+|.+|+|||+++..++.
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~   72 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAY   72 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHH
Confidence            4799999999999999877654

>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=86.28  E-value=0.13  Score=38.98  Aligned_cols=22  Identities=18%  Similarity=0.310  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCChHHHHHHHHhc
Q 041042           84 LKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      --+++.|++++|||.|+..++.
T Consensus        54 n~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          54 NCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHHH
Confidence            4689999999999999988754

>d1hyha1 c.2.1.5 (A:21-166) L-2-hydroxyisocapronate dehydrogenase, L-HICDH {Lactobacillus confusus [TaxId: 1583]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: L-2-hydroxyisocapronate dehydrogenase, L-HICDH
species: Lactobacillus confusus [TaxId: 1583]

Probab=86.27  E-value=0.96  Score=32.08  Aligned_cols=47  Identities=15%  Similarity=0.137  Sum_probs=31.8

Q ss_pred             hhcCCcEEEEEEeCCC---------hh-----hHHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          152 ACKDSIAILFMFDLTS---------RC-----TLKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~---------~~-----s~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      -++++|++|++.....         +.     ...-++++...+.+++++...|+|.|=+|
T Consensus        66 ~l~~adiVVitaG~~~~~~~~~g~~R~~l~~~N~~i~~~i~~~i~~~~p~aivivvtNPvD  126 (146)
T d1hyha1          66 ALADADVVISTLGNIKLQQDNPTGDRFAELKFTSSMVQSVGTNLKESGFHGVLVVISNPVD  126 (146)
T ss_dssp             GGTTCSEEEECCSCGGGTC-------CTTHHHHHHHHHHHHHHHHHTTCCSEEEECSSSHH
T ss_pred             HhccccEEEEeccccccccccCCccHHHHHHHHHHHHHHHHHHHhhcCCCeEEEEecCcHH
Confidence            4678999988755321         11     11224577777888888888788888888

>d1t2da1 c.2.1.5 (A:1-150) Lactate dehydrogenase {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=86.16  E-value=0.74  Score=32.88  Aligned_cols=49  Identities=18%  Similarity=0.145  Sum_probs=35.2

Q ss_pred             hhhcCCcEEEEEEeCCC----------hhh-H----HHHHHHHHHHHHhCCCCceEEEEeCCCC
Q 041042          151 VACKDSIAILFMFDLTS----------RCT-L----KSVIRWYQQARKCNQTAIPIIIGTKFDD  199 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~----------~~s-~----~~~~~~~~~i~~~~~~~~~ilvgnK~Dl  199 (268)
                      .-++++|++++..-...          +.. +    .-++.+.+.+.+++++...++|-|=+|.
T Consensus        67 ~~~~~advvvitag~~~~~g~~~~~~~R~~l~~~N~~iv~~i~~~i~~~~p~aivivvtNPvD~  130 (150)
T d1t2da1          67 DDLAGADVVIVTAGFTKAPGKSDKEWNRDDLLPLNNKIMIEIGGHIKKNCPNAFIIVVTNPVDV  130 (150)
T ss_dssp             GGGTTCSEEEECCSCSSCTTCCSTTCCGGGGHHHHHHHHHHHHHHHHHHCTTSEEEECSSSHHH
T ss_pred             cccCCCcEEEEecccccCCCCCccccchhHHHHHHHHHHHHHHHHHHhcCCCeEEEEecCchHH
Confidence            45688999999887532          211 1    2345788888999998888899888883

>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=85.79  E-value=0.15  Score=40.64  Aligned_cols=15  Identities=27%  Similarity=0.346  Sum_probs=12.9

Q ss_pred             EEEEcCCCChHHHHH
Q 041042           86 ISLLGDCHIGKTSFL  100 (268)
Q Consensus        86 i~vlG~~~vGKSsLi  100 (268)
                      ++|+|.+|+|||+.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            689999999999754

>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=85.58  E-value=0.16  Score=40.72  Aligned_cols=15  Identities=27%  Similarity=0.454  Sum_probs=13.1

Q ss_pred             EEEEcCCCChHHHHH
Q 041042           86 ISLLGDCHIGKTSFL  100 (268)
Q Consensus        86 i~vlG~~~vGKSsLi  100 (268)
                      ++|.|.+|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            789999999999754

>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=85.50  E-value=0.19  Score=42.30  Aligned_cols=21  Identities=24%  Similarity=0.249  Sum_probs=19.4

Q ss_pred             EEEEcCCCChHHHHHHHHhcC
Q 041042           86 ISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        86 i~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+|.|+.|+||||.+..++..
T Consensus       161 iLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEcCCCCCccHHHHHHhhh
Confidence            899999999999999998774

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=84.46  E-value=0.88  Score=36.01  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCChHHHHHHHHhcC
Q 041042           84 LKISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        84 ~ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      =|+.|+|.+|+|||+|+..+..+
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~   90 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILN   90 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHT
T ss_pred             ceEeeccCCCCChHHHHHHHHhh
Confidence            38899999999999999765443

>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=84.43  E-value=0.27  Score=38.51  Aligned_cols=111  Identities=14%  Similarity=0.103  Sum_probs=63.6

Q ss_pred             EEEEEEeCCCcccccc-chhhhhcCCcEEEEEEeCCChhhHHHHHHHHHHHHHhCC--CCceE-EEEeCCCCCCCCCccc
Q 041042          132 ISYSIWEVTGDAKAQD-HLPVACKDSIAILFMFDLTSRCTLKSVIRWYQQARKCNQ--TAIPI-IIGTKFDDFIQLPIDL  207 (268)
Q Consensus       132 ~~l~i~Dt~G~~~~~~-~~~~~~~~a~~vilv~D~~~~~s~~~~~~~~~~i~~~~~--~~~~i-lvgnK~Dl~~~~~~~~  207 (268)
                      +.+.+.||++.-.... ........||.++++.+. +..++..+...+..+.....  +..+. +|.|+.+.    ..  
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~----~~--  188 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKV----AN--  188 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSS----SC--
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhccccceeccceEEeeecC----CC--
Confidence            4577888876433222 222223457888888776 56777776666666655432  22223 88899884    11  


Q ss_pred             hhchHHHHHHHHHHhCCeEEEE---------cCCCC---------cCHHHHHHHHHHHHhcCc
Q 041042          208 QWTIASQARAYAKALNATLFFS---------SATYN---------INVNKILKFITAKLFDIP  252 (268)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~---------Sa~~~---------~~i~~~f~~l~~~i~~~~  252 (268)
                         ..+..+++++..+.+++.+         +...|         ......|..+++.+.+..
T Consensus       189 ---~~~~~~~~~~~~~~~~~~~IP~d~~i~~a~~~g~~v~~~~p~s~~a~~~~~La~~i~~~~  248 (269)
T d1cp2a_         189 ---EYELLDAFAKELGSQLIHFVPRSPMVTKAEINKQTVIEYDPTCEQAEEYRELARKVDANE  248 (269)
T ss_dssp             ---CHHHHHHHHHHHTCCEEEEECCCHHHHHHHHTTSCHHHHCTTSHHHHHHHHHHHHHHHCC
T ss_pred             ---ccchhhhhHhhcCCeEEEEEecCHHHHHHHHCCCCeEEECcCCHHHHHHHHHHHHHHcCC
Confidence               1345666777888765542         11122         233445677777776653

>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=83.70  E-value=0.26  Score=39.99  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=18.0

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -++++|++|||||.|.+.+..
T Consensus        55 ~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHHH
Confidence            478889999999999998754

>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=83.37  E-value=0.32  Score=37.35  Aligned_cols=21  Identities=24%  Similarity=0.150  Sum_probs=18.3

Q ss_pred             EEEEEcCCCChHHHHHHHHhc
Q 041042           85 KISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      -|.|.|..|+||||..+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            477899999999999998854

>d1ldna1 c.2.1.5 (A:15-162) Lactate dehydrogenase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=83.34  E-value=2.1  Score=30.20  Aligned_cols=48  Identities=6%  Similarity=0.096  Sum_probs=32.4

Q ss_pred             hhhcCCcEEEEEEeCCCh------hh----HHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          151 VACKDSIAILFMFDLTSR------CT----LKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~------~s----~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      ..+++||++++..-....      +-    -.-++.+.+.+.+++++...|+|.|=+|
T Consensus        70 ~~l~daDvvvitag~~~~~~~~R~dl~~~N~~i~~~i~~~i~~~~p~a~~ivvtNPvd  127 (148)
T d1ldna1          70 DDCRDADLVVICAGANQKPGETRLDLVDKNIAIFRSIVESVMASGFQGLFLVATNPVD  127 (148)
T ss_dssp             GGTTTCSEEEECCSCCCCTTTCSGGGHHHHHHHHHHHHHHHHHHTCCSEEEECSSSHH
T ss_pred             HHhccceeEEEecccccccCcchhHHHHHHHHHHHHHHHHHHhhCCCceEEEecCccH
Confidence            346788988887644221      11    2233467778888898887788888887

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=82.85  E-value=0.36  Score=38.35  Aligned_cols=22  Identities=32%  Similarity=0.659  Sum_probs=19.9

Q ss_pred             EEEEEcCCCChHHHHHHHHhcC
Q 041042           85 KISLLGDCHIGKTSFLEKYVGD  106 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l~~~  106 (268)
                      |+.++|.+|+|||+|+..+..+
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHH
Confidence            8999999999999999888654

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=82.25  E-value=2.1  Score=31.19  Aligned_cols=48  Identities=6%  Similarity=-0.045  Sum_probs=30.5

Q ss_pred             hhhcCCcEEEEEEeCCChh--hH--------HHHHHHHHHHHHhCCCC-ceEEEEeCCC
Q 041042          151 VACKDSIAILFMFDLTSRC--TL--------KSVIRWYQQARKCNQTA-IPIIIGTKFD  198 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~~--s~--------~~~~~~~~~i~~~~~~~-~~ilvgnK~D  198 (268)
                      ..+.++|++|++-......  +-        .-++.+.+.+.++.+.. .+++|+|-.|
T Consensus        96 ~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~~~i~~~a~~~~~vlvv~NPvd  154 (175)
T d7mdha1          96 EVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCN  154 (175)
T ss_dssp             HHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHH
T ss_pred             hhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCcEEEEecCcHH
Confidence            3468899999997654221  11        11346666777777644 4568888877

>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=81.82  E-value=0.4  Score=39.63  Aligned_cols=19  Identities=26%  Similarity=0.247  Sum_probs=15.7

Q ss_pred             EEEEEcCCCChHHHHHHHH
Q 041042           85 KISLLGDCHIGKTSFLEKY  103 (268)
Q Consensus        85 ki~vlG~~~vGKSsLi~~l  103 (268)
                      -++|.|.+|+|||+++..+
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            4778999999999987553

>d1a5za1 c.2.1.5 (A:22-163) Lactate dehydrogenase {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Thermotoga maritima [TaxId: 2336]

Probab=81.25  E-value=2.9  Score=29.07  Aligned_cols=47  Identities=15%  Similarity=0.188  Sum_probs=31.8

Q ss_pred             hhcCCcEEEEEEeCCC-----hhh-----HHHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          152 ACKDSIAILFMFDLTS-----RCT-----LKSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~-----~~s-----~~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      .++++|++++..-...     +..     ..-+..+.+.+.+++++...+++.|=+|
T Consensus        64 ~~~~adivvitag~~~~~g~~r~dl~~~N~~I~~~i~~~i~~~~p~aivivvtNPvd  120 (140)
T d1a5za1          64 DLKGSDVVIVAAGVPQKPGETRLQLLGRNARVMKEIARNVSKYAPDSIVIVVTNPVD  120 (140)
T ss_dssp             GGTTCSEEEECCCCCCCSSCCHHHHHHHHHHHHHHHHHHHHHHCTTCEEEECSSSHH
T ss_pred             HhcCCCEEEEecccccCCCcchhhhhccccchHHHHHHHHHhcCCCcEEEEeCCcHH
Confidence            4688999888864321     111     1224467788888899888788888777

>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=80.34  E-value=0.48  Score=37.40  Aligned_cols=23  Identities=30%  Similarity=0.333  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCChHHHHHHHHhc
Q 041042           83 ALKISLLGDCHIGKTSFLEKYVG  105 (268)
Q Consensus        83 ~~ki~vlG~~~vGKSsLi~~l~~  105 (268)
                      .--+++.|.++.|||+|++.+..
T Consensus       104 ~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         104 RNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEEEEcCCCCCHHHHHHHHHH
Confidence            45688999999999999998765

>d1y6ja1 c.2.1.5 (A:7-148) Lactate dehydrogenase {Clostridium thermocellum [TaxId: 1515]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Lactate dehydrogenase
species: Clostridium thermocellum [TaxId: 1515]

Probab=80.32  E-value=2.9  Score=29.20  Aligned_cols=48  Identities=15%  Similarity=0.138  Sum_probs=29.6

Q ss_pred             hhhcCCcEEEEEEeCCCh---hhH-------HHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          151 VACKDSIAILFMFDLTSR---CTL-------KSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       151 ~~~~~a~~vilv~D~~~~---~s~-------~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      ..++++|++++..-....   ..+       .-+....+.+.+++++...|+|.|=.|
T Consensus        64 ~~~~~adivvitag~~~~~~~~r~~l~~~N~~i~~~i~~~i~~~~p~ai~ivvtNPvd  121 (142)
T d1y6ja1          64 SDVKDCDVIVVTAGANRKPGETRLDLAKKNVMIAKEVTQNIMKYYNHGVILVVSNPVD  121 (142)
T ss_dssp             GGGTTCSEEEECCCC------CHHHHHHHHHHHHHHHHHHHHHHCCSCEEEECSSSHH
T ss_pred             HHhCCCceEEEecccccCcCcchhHHhhHHHHHHHHHHHHhhccCCCceEEEecChHH
Confidence            446889988887543321   111       122355666777888887778888777

>d2cmda1 c.2.1.5 (A:1-145) Malate dehydrogenase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Escherichia coli [TaxId: 562]

Probab=80.08  E-value=1.9  Score=30.34  Aligned_cols=47  Identities=21%  Similarity=0.131  Sum_probs=32.3

Q ss_pred             hhcCCcEEEEEEeCCC-----hhh-H----HHHHHHHHHHHHhCCCCceEEEEeCCC
Q 041042          152 ACKDSIAILFMFDLTS-----RCT-L----KSVIRWYQQARKCNQTAIPIIIGTKFD  198 (268)
Q Consensus       152 ~~~~a~~vilv~D~~~-----~~s-~----~~~~~~~~~i~~~~~~~~~ilvgnK~D  198 (268)
                      .++++|++|+..-...     +.. +    .-+++..+.+.+++++...|+|.|=.|
T Consensus        66 ~~~~aDvvvitaG~~~k~g~~R~dl~~~N~~i~~~v~~~i~~~~p~aivivvtNPvD  122 (145)
T d2cmda1          66 ALEGADVVLISAGVRRKPGMDRSDLFNVNAGIVKNLVQQVAKTCPKACIGIITNPVN  122 (145)
T ss_dssp             HHTTCSEEEECCSCCCCTTCCGGGGHHHHHHHHHHHHHHHHHHCTTSEEEECSSSHH
T ss_pred             ccCCCCEEEECCCccCCCCcchhhHHHHHHHHHHHHHHHHHhhCCCcEEEEccCCch
Confidence            3578999999875431     111 1    223466777888898888889999888