RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3808
(330 letters)
>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA
ATPase, ATP-binding, coiled coil, membrane,
nucleotide-binding, phosphorylation; HET: ATP; 3.00A
{Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A
2jq9_A 2k3w_A 1yxr_A
Length = 444
Score = 416 bits (1070), Expect = e-145
Identities = 220/340 (64%), Positives = 259/340 (76%), Gaps = 20/340 (5%)
Query: 2 TTFDKGINIAIKATEADKNKNYEEALKLYTHSVQYFLHALKYEITSAEGKQSIREKCDEY 61
T K I++A KA + DK NYEEAL+LY H+VQYFLH +KYE + KQSIR KC EY
Sbjct: 6 TNLQKAIDLASKAAQEDKAGNYEEALQLYQHAVQYFLHVVKYEAQGDKAKQSIRAKCTEY 65
Query: 62 LARAEKLKEYLKKGKKQPVK-----DGESRTKDDKKESDEDDSEDPDKKKMQANLEGAIV 116
L RAEKLKEYLKK +K+P K + E +S+DP+KKK+Q L+GAIV
Sbjct: 66 LDRAEKLKEYLKKKEKKPQKPVKEEQSGPVDEKGNDSDGEAESDDPEKKKLQNQLQGAIV 125
Query: 117 MEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAK 176
+E+PNVKW+DVAGLE AKEALKEAVILPIKFP LFTGKR PW+GILLFGPPGTGKSYLAK
Sbjct: 126 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAK 185
Query: 177 AVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID------- 229
AVATEANNSTFFS+SSSDLVSKWLGESEKLVK LF+LAR ++PSIIFIDE ID
Sbjct: 186 AVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDE-IDSLCGSRS 244
Query: 230 -------RGISNALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRRRFEKRIYIALPELN 282
R I + + GVG D DGILVLGATNIPWVLD+AIRRRFEKRIYI LPE +
Sbjct: 245 ENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAH 304
Query: 283 ARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
AR MFR HLG+T+N++++ + +EL ++T+GYSGADIS +
Sbjct: 305 ARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISII 344
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 367 bits (943), Expect = e-128
Identities = 159/223 (71%), Positives = 183/223 (82%), Gaps = 15/223 (6%)
Query: 114 AIVMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSY 173
AIV+E+PNVKW+DVAGLE AKEALKEAVILPIKFP LFTGKR PW+GILLFGPPGTGKSY
Sbjct: 1 AIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSY 60
Query: 174 LAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID---- 229
LAKAVATEANNSTFFS+SSSDLVSKWLGESEKLVK LF+LAR ++PSIIFIDE ID
Sbjct: 61 LAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDE-IDSLCG 119
Query: 230 ----------RGISNALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRRRFEKRIYIALP 279
R I + + GVG D DGILVLGATNIPWVLD+AIRRRFEKRIYI LP
Sbjct: 120 SRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLP 179
Query: 280 ELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
E +AR MF+ HLG T+N++++ + +EL ++T+GYSGADIS +
Sbjct: 180 EPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISII 222
>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase,
ATP-binding cassette, ATP-binding, endosome, MEM
nucleotide-binding; 2.70A {Saccharomyces cerevisiae}
PDB: 3eih_A* 2rko_A 3mhv_C
Length = 322
Score = 359 bits (924), Expect = e-125
Identities = 144/223 (64%), Positives = 170/223 (76%), Gaps = 16/223 (7%)
Query: 114 AIVMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSY 173
AI+ EKPNVKW DVAGLE AKEALKEAVILP+KFP LF G R P GILL+GPPGTGKSY
Sbjct: 7 AILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSY 66
Query: 174 LAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID---- 229
LAKAVATEA NSTFFSVSSSDLVSKW+GESEKLVK LF +AR ++PSIIFID+ +D
Sbjct: 67 LAKAVATEA-NSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQ-VDALTG 124
Query: 230 ----------RGISNALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRRRFEKRIYIALP 279
R I L + ++GVGND G+LVLGATNIPW LD+AIRRRFE+RIYI LP
Sbjct: 125 TRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLP 184
Query: 280 ELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
+L AR MF ++G+T ++ E+ + L TEGYSG+DI+ +
Sbjct: 185 DLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVV 227
>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta
domain, C-terminal helix, ATP-binding, E
nucleotide-binding; 2.90A {Saccharomyces cerevisiae}
PDB: 2qpa_A*
Length = 355
Score = 355 bits (913), Expect = e-122
Identities = 155/262 (59%), Positives = 188/262 (71%), Gaps = 17/262 (6%)
Query: 76 KKQPVKDGESRTKDDKKESDE-DDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGLEAAK 134
KK P S + K +E +D+ D KK++ L AI+ EKPNVKW DVAGLE AK
Sbjct: 1 KKSPSAGSGSNGGNKKISQEEGEDNGGEDNKKLRGALSSAILSEKPNVKWEDVAGLEGAK 60
Query: 135 EALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSD 194
EALKEAVILP+KFP LF G R P GILL+GPPGTGKSYLAKAVATEA NSTFFSVSSSD
Sbjct: 61 EALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA-NSTFFSVSSSD 119
Query: 195 LVSKWLGESEKLVKTLFELARAHRPSIIFIDERID--------------RGISNALFLLL 240
LVSKW+GESEKLVK LF +AR ++PSIIFID+ +D R I L + +
Sbjct: 120 LVSKWMGESEKLVKQLFAMARENKPSIIFIDQ-VDALTGTRGEGESEASRRIKTELLVQM 178
Query: 241 SGVGNDMDGILVLGATNIPWVLDAAIRRRFEKRIYIALPELNARLFMFRHHLGNTRNTIS 300
+GVGND G+LVLGATNIPW LD+AIRRRFE+RIYI LP+L AR MF ++G+T + ++
Sbjct: 179 NGVGNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLT 238
Query: 301 DENLKELAKRTEGYSGADISTL 322
E+ + L TEGYSG+DI+ +
Sbjct: 239 KEDYRTLGAMTEGYSGSDIAVV 260
>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural
genomics consortium, ATP- hydrolase, magnesium,
metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo
sapiens}
Length = 357
Score = 342 bits (880), Expect = e-117
Identities = 99/265 (37%), Positives = 151/265 (56%), Gaps = 17/265 (6%)
Query: 73 KKGKKQPVKDGESRTKDDKKESDEDDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGLEA 132
+ ++ + D+ + KM + I+ P V W D+AG+E
Sbjct: 32 GGEQNGGMQCKPYGAGPTEPAHPVDERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEF 91
Query: 133 AKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATEANNSTFFSVSS 192
AK +KE V+ P+ P +FTG R P KGILLFGPPGTGK+ + K +A+++ +TFFS+S+
Sbjct: 92 AKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS-GATFFSISA 150
Query: 193 SDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID--------------RGISNALFL 238
S L SKW+GE EK+V+ LF +AR +P++IFIDE ID R I +
Sbjct: 151 SSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDE-IDSLLSQRGDGEHESSRRIKTEFLV 209
Query: 239 LLSGVGND-MDGILVLGATNIPWVLDAAIRRRFEKRIYIALPELNARLFMFRHHLGNTRN 297
L G D ILV+GATN P +D A RRR KR+YI LPE +AR + + + +
Sbjct: 210 QLDGATTSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQC 269
Query: 298 TISDENLKELAKRTEGYSGADISTL 322
+S+E ++++ ++++ +SGAD++ L
Sbjct: 270 CLSEEEIEQIVQQSDAFSGADMTQL 294
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 340 bits (873), Expect = e-117
Identities = 103/234 (44%), Positives = 145/234 (61%), Gaps = 18/234 (7%)
Query: 105 KKMQANLEGAIVMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLF 164
+K+ + IV V+WTD+AG + AK+AL+E VILP P+LFTG R P KG+LLF
Sbjct: 1 QKLVQLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLF 60
Query: 165 GPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFI 224
GPPG GK+ LA+AVATE ++TF ++S++ L SK++G+ EKLV+ LF +AR +PSIIFI
Sbjct: 61 GPPGNGKTLLARAVATEC-SATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFI 119
Query: 225 DERID--------------RGISNALFLLLSGVGNDMDG--ILVLGATNIPWVLDAAIRR 268
DE +D R + + G+ + DG I+VL ATN P LD A R
Sbjct: 120 DE-VDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR 178
Query: 269 RFEKRIYIALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
RF KR+Y++LP+ R + L + + E L+ LAK T+GYSG+D++ L
Sbjct: 179 RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTAL 232
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 340 bits (874), Expect = e-116
Identities = 107/292 (36%), Positives = 160/292 (54%), Gaps = 20/292 (6%)
Query: 46 TSAEGKQSIREKCDEYLARAEKLKEYLKKGKKQPVKDGESRTKDDKKESDEDDSEDPDKK 105
+ S+ + A + K + + KK+ + D
Sbjct: 39 APSYSGLSMVSGVKQGSGPAPTTHKGTPKTNRTNKPSTPTTATRKKKDLKNFRNVDS--- 95
Query: 106 KMQANLEGAIVMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFG 165
+ + IV VK+ D+AG + AK+AL+E VILP P+LFTG R P +G+LLFG
Sbjct: 96 NLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFG 155
Query: 166 PPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFID 225
PPG GK+ LAKAVA E+ N+TFF++S++ L SK++GE EKLV+ LF +AR +PSIIFID
Sbjct: 156 PPGNGKTMLAKAVAAES-NATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFID 214
Query: 226 ERID--------------RGISNALFLLLSGVG-NDMDGILVLGATNIPWVLDAAIRRRF 270
+ +D R + + GV D +LV+GATN P LD A+ RRF
Sbjct: 215 Q-VDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLRRF 273
Query: 271 EKRIYIALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
KR+Y++LP RL + ++ L + ++ + L +LA+ T+GYSG+D++ L
Sbjct: 274 IKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTAL 325
>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48, ATP-binding, lipid-binding, nucle binding,
nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus
musculus}
Length = 301
Score = 222 bits (567), Expect = 4e-71
Identities = 81/229 (35%), Positives = 126/229 (55%), Gaps = 26/229 (11%)
Query: 115 IVMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFT--GKRVPWKGILLFGPPGTGKS 172
V+E P V W D+ GLE K L+E V P++ P F G KG+L +GPPG GK+
Sbjct: 5 TVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPS-KGVLFYGPPGCGKT 63
Query: 173 YLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID--- 229
LAKA+A E + F S+ +L++ W GESE V+ +F+ AR P ++F DE +D
Sbjct: 64 LLAKAIANECQ-ANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDE-LDSIA 121
Query: 230 --RGIS------------NALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRR--RFEKR 273
RG + N + + G+ + + ++GATN P ++D AI R R ++
Sbjct: 122 KARGGNIGDGGGAADRVINQILTEMDGM-STKKNVFIIGATNRPDIIDPAILRPGRLDQL 180
Query: 274 IYIALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
IYI LP+ +R+ + + +L + D +L+ LAK T G+SGAD++ +
Sbjct: 181 IYIPLPDEKSRVAILKANLRKS-PVAKDVDLEFLAKMTNGFSGADLTEI 228
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 229 bits (586), Expect = 3e-69
Identities = 81/238 (34%), Positives = 129/238 (54%), Gaps = 24/238 (10%)
Query: 105 KKMQANLEGAIVMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRV-PWKGILL 163
+ + V+E P V W D+ GLE K L+E V P++ P F + P KG+L
Sbjct: 457 SQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLF 516
Query: 164 FGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIF 223
+GPPG GK+ LAKA+A E + F S+ +L++ W GESE V+ +F+ AR P ++F
Sbjct: 517 YGPPGCGKTLLAKAIANECQ-ANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLF 575
Query: 224 IDERID-----RGIS------------NALFLLLSGVGNDMDGILVLGATNIPWVLDAAI 266
DE +D RG + N + + G+ + + ++GATN P ++D AI
Sbjct: 576 FDE-LDSIAKARGGNIGDGGGAADRVINQILTEMDGM-STKKNVFIIGATNRPDIIDPAI 633
Query: 267 RR--RFEKRIYIALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
R R ++ IYI LP+ +R+ + + +L + D +L+ LAK T G+SGAD++ +
Sbjct: 634 LRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEI 690
Score = 194 bits (494), Expect = 3e-56
Identities = 80/223 (35%), Positives = 124/223 (55%), Gaps = 23/223 (10%)
Query: 118 EKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFT--GKRVPWKGILLFGPPGTGKSYLA 175
V + DV G +KE V LP++ P LF G + P +GILL+GPPGTGK+ +A
Sbjct: 197 SLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPP-RGILLYGPPGTGKTLIA 255
Query: 176 KAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID------ 229
+AVA E + FF ++ +++SK GESE ++ FE A + P+IIFIDE +D
Sbjct: 256 RAVANETG-AFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDE-LDAIAPKR 313
Query: 230 --------RGISNALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRR--RFEKRIYIALP 279
R I + L L+ G+ ++V+ ATN P +D A+RR RF++ + I +P
Sbjct: 314 EKTHGEVERRIVSQLLTLMDGLKQR-AHVIVMAATNRPNSIDPALRRFGRFDREVDIGIP 372
Query: 280 ELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
+ RL + + H N + D +L+++A T G+ GAD++ L
Sbjct: 373 DATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAAL 414
Score = 38.6 bits (90), Expect = 0.002
Identities = 10/72 (13%), Positives = 26/72 (36%)
Query: 81 KDGESRTKDDKKESDEDDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGLEAAKEALKEA 140
+ R + + E + +DP + + + E A+ + +V D+ E + L+++
Sbjct: 706 EIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIRKYEMFAQTLQQS 765
Query: 141 VILPIKFPQLFT 152
Sbjct: 766 RGFGSFRFPSGN 777
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 215 bits (549), Expect = 1e-68
Identities = 81/236 (34%), Positives = 121/236 (51%), Gaps = 36/236 (15%)
Query: 117 MEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFT--GKRVPWKGILLFGPPGTGKSYL 174
M PNV W D+ LE +E L A++ P++ P F G P G+LL GPPG GK+ L
Sbjct: 2 MTVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTP-AGVLLAGPPGCGKTLL 60
Query: 175 AKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID----- 229
AKAVA E+ F SV +L++ ++GESE+ V+ +F+ A+ P +IF DE +D
Sbjct: 61 AKAVANESG-LNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDE-VDALCPR 118
Query: 230 RGISNALFLLLSGVG--------NDMDGI------LVLGATNIPWVLDAAIRR--RFEKR 273
R +G +MDG+ ++ ATN P ++D AI R R +K
Sbjct: 119 RSDRE------TGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKT 172
Query: 274 IYIALPELNARLFMFRHHLGNTRNTI--SDENLKELAK--RTEGYSGADISTLERN 325
+++ LP RL + + N +D NL+ +A R + Y+GAD+S L R
Sbjct: 173 LFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVRE 228
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 204 bits (521), Expect = 2e-64
Identities = 101/233 (43%), Positives = 142/233 (60%), Gaps = 36/233 (15%)
Query: 116 VMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRV---PWKGILLFGPPGTGKS 172
V E+PNV++ D+ GLE + ++E V LP+K P+LF ++V P KGILL+GPPGTGK+
Sbjct: 8 VDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELF--EKVGIEPPKGILLYGPPGTGKT 65
Query: 173 YLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDE------ 226
LAKAVATE N +TF V S+LV K++GE LVK +F+LA+ PSIIFIDE
Sbjct: 66 LLAKAVATETN-ATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAA 124
Query: 227 -RI------DRGISNALFLLLSGVGNDMDG------ILVLGATNIPWVLDAAIRR--RFE 271
R DR + L LL +MDG + ++GATN P +LD AI R RF+
Sbjct: 125 KRTDALTGGDREVQRTLMQLL----AEMDGFDARGDVKIIGATNRPDILDPAILRPGRFD 180
Query: 272 KRIYIALPELNARLFMFRHHLGNTRN-TISDE-NLKELAKRTEGYSGADISTL 322
+ I + P+ RL + + H TR ++++ NL+E+AK TEG GA++ +
Sbjct: 181 RIIEVPAPDEKGRLEILKIH---TRKMNLAEDVNLEEIAKMTEGCVGAELKAI 230
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein;
HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A*
1e32_A* 1s3s_A* 2pjh_B
Length = 489
Score = 203 bits (518), Expect = 8e-62
Identities = 79/222 (35%), Positives = 123/222 (55%), Gaps = 21/222 (9%)
Query: 118 EKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRV-PWKGILLFGPPGTGKSYLAK 176
V + D+ G +KE V LP++ P LF V P +GILL+GPPGTGK+ +A+
Sbjct: 197 SLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 177 AVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID------- 229
AVA E + FF ++ +++SK GESE ++ FE A + P+IIFIDE +D
Sbjct: 257 AVANETG-AFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDE-LDAIAPKRE 314
Query: 230 -------RGISNALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRR--RFEKRIYIALPE 280
R I + L L+ G+ ++V+ ATN P +D A+RR RF++ + I +P+
Sbjct: 315 KTHGEVERRIVSQLLTLMDGLKQR-AHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPD 373
Query: 281 LNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
RL + + H N + D +L+++A T G+ GAD++ L
Sbjct: 374 ATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAAL 414
Score = 33.2 bits (76), Expect = 0.12
Identities = 7/21 (33%), Positives = 9/21 (42%)
Query: 115 IVMEKPNVKWTDVAGLEAAKE 135
V+E P V W D+ G
Sbjct: 467 TVVEVPQVTWEDIGGRSHHHH 487
>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics,
structural G consortium, SGC, ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo
sapiens}
Length = 262
Score = 165 bits (420), Expect = 1e-49
Identities = 86/231 (37%), Positives = 122/231 (52%), Gaps = 40/231 (17%)
Query: 121 NVKWTDVAGLEAAKEALKEAVIL---PIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKA 177
V + DVAG+ AK ++E V P +F QL G +VP KG LL GPPG GK+ LAKA
Sbjct: 2 GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQL--GAKVP-KGALLLGPPGCGKTLLAKA 58
Query: 178 VATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID-----RGI 232
VATEA F +++ ++ V G V++LF+ ARA P I++IDE ID R
Sbjct: 59 VATEA-QVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDE-IDAVGKKRST 116
Query: 233 SNALFLLLSGVGND------------MDG------ILVLGATNIPWVLDAAIRR--RFEK 272
+ +SG N MDG ++VL +TN +LD A+ R R ++
Sbjct: 117 T------MSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDR 170
Query: 273 RIYIALPELNARLFMFRHHLGNTRNTIS-DENLKELAKRTEGYSGADISTL 322
++I LP L R +F HL + + T S + LA+ T G+SGADI+ +
Sbjct: 171 HVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANI 221
>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding,
cell CELL division, hydrolase, membrane, metal-binding;
3.30A {Helicobacter pylori} PDB: 2r65_A*
Length = 268
Score = 164 bits (417), Expect = 3e-49
Identities = 89/227 (39%), Positives = 133/227 (58%), Gaps = 27/227 (11%)
Query: 118 EKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFT--GKRVPWKGILLFGPPGTGKSYLA 175
EKPNV++ D+AG E AKE + E V +K+P+ + G ++P KG+LL GPPGTGK+ LA
Sbjct: 4 EKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIP-KGVLLVGPPGTGKTLLA 61
Query: 176 KAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID-----R 230
KAVA EA + FFS+ S + ++G V+ LFE A+ PSIIFIDE ID R
Sbjct: 62 KAVAGEA-HVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDE-IDAIGKSR 119
Query: 231 GIS-------------NALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRR--RFEKRIY 275
N L + G G++ ++VL ATN P +LD A+ R RF++++
Sbjct: 120 AAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVL 179
Query: 276 IALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
+ P+ N R+ + + H+ + +D NL+E+AK T G +GAD++ +
Sbjct: 180 VDKPDFNGRVEILKVHIKGVK-LANDVNLQEVAKLTAGLAGADLANI 225
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 160 bits (407), Expect = 1e-47
Identities = 96/236 (40%), Positives = 126/236 (53%), Gaps = 41/236 (17%)
Query: 115 IVMEKPNVKWTDVAGLEAAKEALKEAVIL---PIKFPQLFTGKRVPWKGILLFGPPGTGK 171
++ E P V + DVAG E AKE LKE V P +F ++ G R+P KG+LL GPPG GK
Sbjct: 30 VLTEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEM--GARIP-KGVLLVGPPGVGK 86
Query: 172 SYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID-- 229
++LA+AVA EA F + S SD V ++G V+ LFE A+ H P I+FIDE ID
Sbjct: 87 THLARAVAGEA-RVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDE-IDAV 144
Query: 230 ---RGISNALFLLLSGVGND------------MDG------ILVLGATNIPWVLDAAIRR 268
RG G GND MDG I+V+ ATN P +LD A+ R
Sbjct: 145 GRKRGSG-------VGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLR 197
Query: 269 --RFEKRIYIALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
RF+++I I P++ R + R H D +L LAKRT G+ GAD+ L
Sbjct: 198 PGRFDRQIAIDAPDVKGREQILRIHARGKP-LAEDVDLALLAKRTPGFVGADLENL 252
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 158 bits (401), Expect = 6e-47
Identities = 82/227 (36%), Positives = 126/227 (55%), Gaps = 29/227 (12%)
Query: 118 EKPNVKWTDVAGLEAAKEALKEAVIL---PIKFPQLFTGKRVPWKGILLFGPPGTGKSYL 174
++ + DVAG + AKE + E V P +F +L G ++P KG+L+ GPPGTGK+ L
Sbjct: 5 DQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKL--GGKIP-KGVLMVGPPGTGKTLL 61
Query: 175 AKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID----- 229
AKA+A EA FF++S SD V ++G V+ +FE A+ P IIFIDE ID
Sbjct: 62 AKAIAGEA-KVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDE-IDAVGRQ 119
Query: 230 RGIS------------NALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRR--RFEKRIY 275
RG N + + + G + +GI+V+ ATN P VLD A+ R RF++++
Sbjct: 120 RGAGLGGGHDEREQTLNQMLVEMDGFEGN-EGIIVIAATNRPDVLDPALLRPGRFDRQVV 178
Query: 276 IALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
+ LP++ R + + H+ D + +A+ T G+SGAD++ L
Sbjct: 179 VGLPDVRGREQILKVHMRRVP-LAPDIDAAIIARGTPGFSGADLANL 224
>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB:
1iy0_A* 1iy1_A*
Length = 254
Score = 158 bits (401), Expect = 7e-47
Identities = 96/233 (41%), Positives = 124/233 (53%), Gaps = 41/233 (17%)
Query: 118 EKPNVKWTDVAGLEAAKEALKEAVIL---PIKFPQLFTGKRVPWKGILLFGPPGTGKSYL 174
E P V + DVAG E AKE LKE V P +F ++ G R+P KG+LL GPPG GK++L
Sbjct: 9 EAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEM--GARIP-KGVLLVGPPGVGKTHL 65
Query: 175 AKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID----- 229
A+AVA EA F + S SD V ++G V+ LFE A+ H P I+FIDE ID
Sbjct: 66 ARAVAGEA-RVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDE-IDAVGRK 123
Query: 230 RGISNALFLLLSGVGND------------MDG------ILVLGATNIPWVLDAAIRR--R 269
RG G GND MDG I+V+ ATN P +LD A+ R R
Sbjct: 124 RGSG-------VGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGR 176
Query: 270 FEKRIYIALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
F+++I I P++ R + R H D +L LAKRT G+ GAD+ L
Sbjct: 177 FDRQIAIDAPDVKGREQILRIHARGKP-LAEDVDLALLAKRTPGFVGADLENL 228
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 159 bits (405), Expect = 4e-45
Identities = 97/238 (40%), Positives = 128/238 (53%), Gaps = 45/238 (18%)
Query: 115 IVMEKPNVKWTDVAGLEAAKEALKEAVIL---PIKFPQLFTGKRVPWKGILLFGPPGTGK 171
++ E P V + DVAG E AKE LKE V P +F ++ G R+P KG+LL GPPG GK
Sbjct: 21 VLTEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEM--GARIP-KGVLLVGPPGVGK 77
Query: 172 SYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID-- 229
++LA+AVA EA F + S SD V ++G V+ LFE A+ H P I+FIDE ID
Sbjct: 78 THLARAVAGEA-RVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDE-IDAV 135
Query: 230 ---RGISNALFLLLSGVGND------------MDG------ILVLGATNIPWVLDAAIRR 268
RG + G GND MDG I+V+ ATN P +LD A+ R
Sbjct: 136 GRKRGSG------VGG-GNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLR 188
Query: 269 --RFEKRIYIALPELNARLFMFRHHLGNTRNT--ISDENLKELAKRTEGYSGADISTL 322
RF+++I I P++ R + R H R D +L LAKRT G+ GAD+ L
Sbjct: 189 PGRFDRQIAIDAPDVKGREQILRIH---ARGKPLAEDVDLALLAKRTPGFVGADLENL 243
>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A
{Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB:
2cea_A* 3kds_E*
Length = 476
Score = 158 bits (401), Expect = 1e-44
Identities = 99/235 (42%), Positives = 126/235 (53%), Gaps = 45/235 (19%)
Query: 118 EKPNVKWTDVAGLEAAKEALKEAVIL---PIKFPQLFTGKRVPWKGILLFGPPGTGKSYL 174
V + DV G E A E LKE V P KF ++ G R+P KGILL GPPGTGK+ L
Sbjct: 9 GNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRI--GARMP-KGILLVGPPGTGKTLL 65
Query: 175 AKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERID----- 229
A+AVA EA N FF +S SD V ++G V+ LF A+AH P I+FIDE ID
Sbjct: 66 ARAVAGEA-NVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDE-IDAVGRH 123
Query: 230 RGISNALFLLLSGVGND------------MDG------ILVLGATNIPWVLDAAIRR--R 269
RG L G G+D MDG I+V+ ATN P +LD A+ R R
Sbjct: 124 RGAG------LGG-GHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGR 176
Query: 270 FEKRIYIALPELNARLFMFRHHLGNTRNT--ISDENLKELAKRTEGYSGADISTL 322
F+K+I + P++ R + H TRN D NL+ +AKRT G+ GAD+ L
Sbjct: 177 FDKKIVVDPPDMLGRKKILEIH---TRNKPLAEDVNLEIIAKRTPGFVGADLENL 228
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 147 bits (373), Expect = 2e-42
Identities = 40/226 (17%), Positives = 77/226 (34%), Gaps = 42/226 (18%)
Query: 126 DVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATEANNS 185
+ G A + + V+ K +VP + ++G G GKS+ + V +
Sbjct: 5 KLDGFYIAPAFMDKLVVHITKNFLKLPNIKVP-LILGIWGGKGQGKSFQCELVFRKM-GI 62
Query: 186 TFFSVSSSDLVSKWLGESEKLVKTLFELA----RAHRPSIIFIDERIDRGIS-------- 233
+S+ +L S GE KL++ + A R +FI++ +D G
Sbjct: 63 NPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFIND-LDAGAGRMGGTTQY 121
Query: 234 -------NALFLLLSGVGND--MDG---------ILVLGATNIPWVLDAAIRR--RFEKR 273
NA + ++ + + G + ++ N L A + R R EK
Sbjct: 122 TVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKF 181
Query: 274 IYIALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADI 319
+ E + N +++ K + + G I
Sbjct: 182 YWAPTREDRIGVCTGIFRTDNV-------PAEDVVKIVDNFPGQSI 220
>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain,
ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus}
SCOP: c.37.1.20 PDB: 1nsf_A*
Length = 272
Score = 135 bits (342), Expect = 4e-38
Identities = 39/211 (18%), Positives = 81/211 (38%), Gaps = 23/211 (10%)
Query: 118 EKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKA 177
+ + + + + L ++ + R P +LL GPP +GK+ LA
Sbjct: 26 DYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNS--DRTPLVSVLLEGPPHSGKTALAAK 83
Query: 178 VATEANNSTFFSVSSSDLVSKWLGESE-KLVKTLFELARAHRPSIIFIDE---------- 226
+A E+ N F + S D + + ++ + +K +F+ A + S + +D+
Sbjct: 84 IAEES-NFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPI 142
Query: 227 --RIDRGISNALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRR--RFEKRIYIALPELN 282
R + AL +LL +L++G T+ VL + F I++ P +
Sbjct: 143 GPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQ-EMEMLNAFSTTIHV--PNIA 199
Query: 283 ARLFMFRHHLGNTRNTISDENLKELAKRTEG 313
+ D+ +A++ +G
Sbjct: 200 TGEQLLEALELL--GNFKDKERTTIAQQVKG 228
>2cpt_A SKD1 protein, vacuolar sorting protein 4B; MIT, helix bundle,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
a.7.14.1
Length = 117
Score = 98.6 bits (245), Expect = 7e-26
Identities = 53/104 (50%), Positives = 68/104 (65%), Gaps = 5/104 (4%)
Query: 3 TFDKGINIAIKATEADKNKNYEEALKLYTHSVQYFLHALKYEITSAEGKQSIREKCDEYL 62
K I++A KA + DK NYEEAL+LY H+VQYFLH +KYE + KQSIR KC EYL
Sbjct: 14 NLQKAIDLASKAAQEDKAGNYEEALQLYQHAVQYFLHVVKYEAQGDKAKQSIRAKCTEYL 73
Query: 63 ARAEKLKEYLKKGK---KQPVKDGESRTKDDKKESDEDDSEDPD 103
RAEKLKEYLK + ++PVK+G+ D+K ++ D P
Sbjct: 74 DRAEKLKEYLKNKEKKAQKPVKEGQPSPADEK--GNDSDGSGPS 115
>1wfd_A Hypothetical protein 1500032H18; MIT domain, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
unknown function; NMR {Mus musculus} SCOP: a.7.14.1
Length = 93
Score = 89.2 bits (221), Expect = 2e-22
Identities = 21/81 (25%), Positives = 35/81 (43%), Gaps = 1/81 (1%)
Query: 5 DKGINIAIKATEADKNKNYEEALKLYTHSVQYFLHALKYEITSAEGKQSIREKCDEYLAR 64
+ + +A E D Y++AL Y + L LK + + +R K Y+ R
Sbjct: 13 TAAVAVLKRAVELDAESRYQQALVCYQEGIDMLLQVLKGT-KESSKRCVLRTKISGYMDR 71
Query: 65 AEKLKEYLKKGKKQPVKDGES 85
AE +K+YL + K+ S
Sbjct: 72 AENIKKYLDQEKEDGKSGPSS 92
>2v6x_A Vacuolar protein sorting-associated protein 4; protein transport,
vacuole, endosome, transport, ESCRT-III, VPS2, VPS4,
SKD1, VPS4B, VPS4A; 1.98A {Saccharomyces cerevisiae}
Length = 85
Score = 84.2 bits (208), Expect = 1e-20
Identities = 30/74 (40%), Positives = 42/74 (56%), Gaps = 1/74 (1%)
Query: 5 DKGINIAIKATEADKNKNYEEALKLYTHSVQYFLHALKYEITSAEGKQSIREKCDEYLAR 64
KGI + KA + D YEEA Y + + Y + ALKYE + + K IR K EYL R
Sbjct: 11 TKGIELVQKAIDLDTATQYEEAYTAYYNGLDYLMLALKYE-KNPKSKDLIRAKFTEYLNR 69
Query: 65 AEKLKEYLKKGKKQ 78
AE+LK++L+ +
Sbjct: 70 AEQLKKHLESEEAN 83
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 74.0 bits (181), Expect = 3e-15
Identities = 44/245 (17%), Positives = 80/245 (32%), Gaps = 27/245 (11%)
Query: 97 DDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGK-- 154
D + P ++A EG+ E ++ GL+ K+ ++E L + +
Sbjct: 3 DAATAPTSIDLRAEYEGSGAKEVLEELDRELIGLKPVKDRIRETAAL-LLVERARQKLGL 61
Query: 155 --RVPWKGILLFGPPGTGKSYLAKAVATEAN------NSTFFSVSSSDLVSKWLGESEKL 206
P + G PGTGK+ +A +A + SV+ DLV +++G +
Sbjct: 62 AHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPK 121
Query: 207 VKTLFELARAHRPSIIFIDE-------RIDRGISNALFLLLSGVGNDMDGILVLGATNIP 259
K + + A ++FIDE +R +L V + LV+
Sbjct: 122 TKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYA 178
Query: 260 WVLDA------AIRRRFEKRIYIALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEG 313
++ R R I + H L + ++ E L
Sbjct: 179 DRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGL 238
Query: 314 YSGAD 318
Sbjct: 239 RRNQP 243
>2v6y_A AAA family ATPase, P60 katanin; MIT, VPS4, archaea, AAA-ATPase,
ATP-binding, microtubule INT and trafficking domain,
nucleotide-binding; HET: SRT; 2.40A {Sulfolobus
solfataricus} PDB: 2v6y_B*
Length = 83
Score = 62.4 bits (151), Expect = 8e-13
Identities = 15/75 (20%), Positives = 29/75 (38%), Gaps = 1/75 (1%)
Query: 5 DKGINIAIKATEADKNKNYEEALKLYTHSVQYFLHALKYEITSAEGKQSIREKCDEYLAR 64
D AI A +ADK E+A+ Y +++ + + + + + +EY R
Sbjct: 9 DMARKYAILAVKADKEGKVEDAITYYKKAIEVLSQIIVLY-PESVARTAYEQMINEYKKR 67
Query: 65 AEKLKEYLKKGKKQP 79
L++ L
Sbjct: 68 ISYLEKVLPASSDGS 82
>2w2u_A Hypothetical P60 katanin; hydrolase transport complex,
nucleotide-binding, ESCRT, AAA-ATPase, cytokinesis,
ATP-binding; 2.20A {Sulfolobus acidocaldarius}
Length = 83
Score = 62.0 bits (150), Expect = 1e-12
Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 1/68 (1%)
Query: 5 DKGINIAIKATEADKNKNYEEALKLYTHSVQYFLHALKYEITSAEGKQSIREKCDEYLAR 64
+ AI A +ADK N EEA+ Y +++ + + +EY R
Sbjct: 17 EMARKYAINAVKADKEGNAEEAITNYKKAIEVLAQLVSLY-RDGSTAAIYEQMINEYKRR 75
Query: 65 AEKLKEYL 72
E LKE +
Sbjct: 76 IEVLKELI 83
>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding,
chromatin regulator, growth regulation, hydrolase,
nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo
sapiens} PDB: 2xsz_A*
Length = 456
Score = 60.8 bits (147), Expect = 2e-10
Identities = 30/131 (22%), Positives = 53/131 (40%), Gaps = 12/131 (9%)
Query: 112 EGAIVMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGK 171
G + + G E A+EA V +L K++ + +LL GPPGTGK
Sbjct: 24 LGLDESGLAKQAASGLVGQENAREACGVIV-------ELIKSKKMAGRAVLLAGPPGTGK 76
Query: 172 SYLAKAVATEANNST-FFSVSSSDLVSKWLGESEKLVKTLFE--LARAHRPSIIFIDE-- 226
+ LA A+A E + F + S++ S + ++E L++ R ++ E
Sbjct: 77 TALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIKETKEVYEGEVT 136
Query: 227 RIDRGISNALF 237
+ +
Sbjct: 137 ELTPCETENPM 147
>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 = 52.5 bits (125), Expect = 1e-07
Identities = 46/298 (15%), Positives = 92/298 (30%), Gaps = 83/298 (27%)
Query: 34 VQYFLHALKYEITSAEGKQSIREKCDEYLARAEKLKEYLKKGKKQPVKD--GESRTKDDK 91
+ K ++ E I K + +L L +++ V+ E + K
Sbjct: 35 CKDVQDMPKSILSKEEIDHIIMSKDAV--SGTLRLFWTLLSKQEEMVQKFVEEVLRINYK 92
Query: 92 --KESDEDDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGL-------EAAKEALKEAVI 142
+ + P ++ + +E+ + + D L++A++
Sbjct: 93 FLMSPIKTEQRQP-------SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALL 145
Query: 143 LPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSK---- 198
+L R P K +L+ G G+GK+++A V S + K
Sbjct: 146 ------EL----R-PAKNVLIDGVLGSGKTWVALDV-----------CLSYKVQCKMDFK 183
Query: 199 --WLGESEKLVKTLFELARAHRPSIIFIDERIDRGISNALFLLLSGVGNDMDGILVLGAT 256
WL L + P + + L + ++
Sbjct: 184 IFWLN-----------LKNCNSPETVLE-------MLQKLLYQIDPNWTS----RSDHSS 221
Query: 257 NIPWVLDAA---IRRRFEKRIY-IALPEL----NARLF-MFRHH---LGNTRN-TISD 301
NI + + +RR + + Y L L NA+ + F L TR ++D
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTD 279
Score = 31.0 bits (69), Expect = 0.75
Identities = 22/147 (14%), Positives = 38/147 (25%), Gaps = 37/147 (25%)
Query: 1 MTTFDKGINIAIKATEADKNKNYEEALKLYTH--SVQYFLHALKYEITS--AEGKQS--- 53
+TT K + + A + + + T L L E +
Sbjct: 270 LTTRFKQVTDFLSAATT-THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Query: 54 ----IREKCDEYLARAEKLKEYLKKGKKQPVKDGESRTKDDKKESDEDDSEDPDKKKMQA 109
I E + LA + K + ES + E + +KM
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCDKLTTII------------ESSLNVLEPAEYRKMFD 376
Query: 110 NLEGAIVMEKPNVK---------WTDV 127
L ++ + W DV
Sbjct: 377 RL--SVFPP--SAHIPTILLSLIWFDV 399
>3ec2_A DNA replication protein DNAC; helicase loader, replication
initiation factor, ATP-binding, nucleotide-binding; HET:
DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*
Length = 180
Score = 49.3 bits (118), Expect = 2e-07
Identities = 28/172 (16%), Positives = 58/172 (33%), Gaps = 20/172 (11%)
Query: 131 EAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATEANNSTFFSV 190
+ A++ F F + KG+ G PG GK++LA A
Sbjct: 13 HPKNVSQNRALLTIRVFVHNFNPEEG--KGLTFVGSPGVGKTHLAVATLKAIYEKKGIRG 70
Query: 191 ---SSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDE----RIDRGISNALFLLLSGV 243
+ DL+ + L K L ++ +D+ R+ + +++
Sbjct: 71 YFFDTKDLIFR-LKHLMDEGKDTKFLKTVLNSPVLVLDDLGSERLSDWQRELISYIITYR 129
Query: 244 GNDMDGILVLGATNIP--------WVLDAAIRRRFEKRIYIALPELNARLFM 287
N++ ++ TN + A + R + + + E+N L +
Sbjct: 130 YNNLKSTIIT--TNYSLQREEESSVRISADLASRLGENVVSKIYEMNELLVI 179
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 49.1 bits (117), Expect = 7e-07
Identities = 32/201 (15%), Positives = 68/201 (33%), Gaps = 15/201 (7%)
Query: 6 KGINIAIKATEADKNKNYEEALK-LYTHS-VQYFLHALKYEITSAEGKQSI---REKCDE 60
+ I + + N ++ ++ + V F+ ++ ++ + S+ + E
Sbjct: 2 EKIGETMAKLGQNTRVNSDQLIQTILADPEVASFIS--QHHLSQEQINLSLSKFNQFLVE 59
Query: 61 YLARAEKLKEYLKKGKKQPVKDGESRTKDDKKESDEDDSEDPDKKKMQANLEGAIVMEKP 120
K Y+ KG + + E E+ E K+ + + + K
Sbjct: 60 RQKYQLKDPSYIAKGYQPILAMNEGYADVSYLETKELVEAQ--KQAAISERIQLVSLPKS 117
Query: 121 NVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVAT 180
++ ++ + EA + F + + KG+ L+G G GKSYL A+A
Sbjct: 118 YRHIH-LSDIDVNNASRMEAFSAILDFVEQYPSAEQ--KGLYLYGDMGIGKSYLLAAMAH 174
Query: 181 EANNSTFFSV---SSSDLVSK 198
E + S
Sbjct: 175 ELSEKKGVSTTLLHFPSFAID 195
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 47.4 bits (112), Expect = 6e-06
Identities = 65/401 (16%), Positives = 124/401 (30%), Gaps = 143/401 (35%)
Query: 16 EADKNKNYEEALKLYTHSVQYF---------LHALKYEITSAEGKQSIREKCDEYLARAE 66
E K +++ L L + F +HAL ++ ++ K E
Sbjct: 73 EPSKVGQFDQVLNL---CLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK--------E 121
Query: 67 KLKEYLKKGKKQPVKDGESRTKDDKKESDEDDS------EDPDKKKM-----QANLEGAI 115
+K Y+ +R + + +S + + + + Q N +
Sbjct: 122 LIKNYI-----------TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY- 169
Query: 116 VME--------KPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFT-GKRV-PWKGILLFG 165
E V D+ ++ + E L E + + ++FT G + W L
Sbjct: 170 FEELRDLYQTYHVLVG--DL--IKFSAETLSELIRTTLDAEKVFTQGLNILEW----LEN 221
Query: 166 P---PGTGKSYLAKA----------------VATEANNST---FF------SVSSSDLVS 197
P P YL V + T + S LV+
Sbjct: 222 PSNTPDK--DYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT 279
Query: 198 --------KW---LGESEKLVKTLFEL-ARAHR--------PSIIFIDERIDRGISNALF 237
W K + LF + R + PSI+ + G+ + +
Sbjct: 280 AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM- 338
Query: 238 LLLSGVGNDMDGIL-VLGATN--IPWVLDAAIRRRFEKRIYIALPELNARLFMFRHHL-- 292
L +S + + + + TN +P K++ I+L +N ++ +
Sbjct: 339 LSISNL--TQEQVQDYVNKTNSHLP----------AGKQVEISL--VNGA----KNLVVS 380
Query: 293 GNTRNTISDENLKELAKRTEGYSGADISTL---ERNFKVDF 330
G + S L ++ + SG D S + ER K+ F
Sbjct: 381 GPPQ---SLYGLNLTLRKAKAPSGLDQSRIPFSER--KLKF 416
Score = 44.7 bits (105), Expect = 3e-05
Identities = 38/257 (14%), Positives = 72/257 (28%), Gaps = 84/257 (32%)
Query: 1 MTTFDKGI----NIAIKATEADKNKNYEEALKLY----THSVQYF------LHALKYEIT 46
T +G+ IA + + +A+ + + + L+ +
Sbjct: 270 ATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLE 329
Query: 47 SAEGKQS----IR-----------EKCDEYLARAEKLKEYLKKGKKQPVKDGESRT---- 87
+ EG S I K + +L ++++ L G K V G ++
Sbjct: 330 NNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL 389
Query: 88 ----KDDKKESDEDDSEDP-DKKKMQAN--------------LEGAIVMEKPNVKWTDVA 128
+ K S D S P ++K++ + L A + D+
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA----SDLIN-KDLV 444
Query: 129 --GLEAAKEALKEAV---------------ILPIKFPQLFTGKRVPWKG--------ILL 163
+ + ++ V I + V W+ IL
Sbjct: 445 KNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIR-LPVKWETTTQFKATHILD 503
Query: 164 FGPPGT-GKSYLAKAVA 179
FGP G G L
Sbjct: 504 FGPGGASGLGVLTHRNK 520
Score = 34.6 bits (79), Expect = 0.047
Identities = 38/274 (13%), Positives = 80/274 (29%), Gaps = 118/274 (43%)
Query: 43 YEITSAEGKQSIREKCDEYL-------------------------ARAEKLKEYLKKGKK 77
Y+ TS + + + D + + ++++E
Sbjct: 1636 YK-TSKAAQD-VWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIF 1693
Query: 78 QPVKDGESRTKDDKKESDEDDSE---DPDKKKM------QANLEGAI-VMEKPNVKWTDV 127
+ + DG+ +T+ KE +E + +K + Q A+ +MEK
Sbjct: 1694 ETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP----ALTLMEK-------- 1741
Query: 128 AGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLA-------KAVAT 180
AA E LK KG++ P + A A+A+
Sbjct: 1742 ----AAFEDLKS-------------------KGLI---PAD---ATFAGHSLGEYAALAS 1772
Query: 181 EANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDERIDRGISNALFLLL 240
A+ S+ LV ++V RG++ + +
Sbjct: 1773 LAD---VMSI--ESLV--------EVVFY--------------------RGMTMQVAVPR 1799
Query: 241 SGVGNDMDGILVLGATNIPWVLDAAIRRRFEKRI 274
+G G++ + + + +R+
Sbjct: 1800 DELGRSNYGMIAINPGRVAASFSQEALQYVVERV 1833
Score = 33.1 bits (75), Expect = 0.16
Identities = 12/62 (19%), Positives = 19/62 (30%), Gaps = 20/62 (32%)
Query: 110 NLEGA-IVMEKPNVKWTDVAG----LEAAKEALKEAVILPIKFPQL---FTGKRVPWKGI 161
N+E V AG L+ L + I +L + + V +G
Sbjct: 1847 NVENQQYV----------AAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEV--EGH 1894
Query: 162 LL 163
L
Sbjct: 1895 LF 1896
Score = 32.7 bits (74), Expect = 0.20
Identities = 38/211 (18%), Positives = 66/211 (31%), Gaps = 67/211 (31%)
Query: 132 AAKEALKEAVILPIKFPQL-FTGKRVPWKGILLFGPPGTGKSY--LAKAVATEANNSTFF 188
AA + L KF L + V P + + TE + +
Sbjct: 49 AADDEPTTPAELVGKF--LGYVSSLVE---------PSKVGQFDQVLNLCLTEFE-NCY- 95
Query: 189 SVSSSD---LVSKWLGESEKLVKTLFELARAHRPSIIFIDERIDRGISNALF-------- 237
+ +D L +K L E++ + EL + + + I D+ ++ALF
Sbjct: 96 -LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNA 154
Query: 238 ---LLLSGVGNDMDGILVLGATNIPWVLDAAIRRRFEKRIYIALPELNARLF-MFRHHLG 293
+ G GN D Y EL L+ + +G
Sbjct: 155 QLVAIFGGQGNTDD--------------------------Y--FEEL-RDLYQTYHVLVG 185
Query: 294 NTRNTISDENLKELAKRTEG----YS-GADI 319
+ + E L EL + T ++ G +I
Sbjct: 186 DLIKFSA-ETLSELIRTTLDAEKVFTQGLNI 215
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 42.1 bits (100), Expect = 1e-05
Identities = 13/46 (28%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 274 IYIALPELNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADI 319
+ + P ARL + + H N NL+++A+ G SGA++
Sbjct: 6 HHHSHPNEEARLDILKIHSRKM-NLTRGINLRKIAELMPGASGAEV 50
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop,
rossman fold, AAA+, photosynthesis, metal transport;
2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB:
2x31_G
Length = 350
Score = 43.2 bits (102), Expect = 5e-05
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 14/56 (25%)
Query: 125 TDVAGLEAAKEALKEAVILP-IKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVA 179
+ + G E K AL + P I G+L+FG GTGKS +A+A
Sbjct: 24 SAIVGQEDMKLALLLTAVDPGIG-------------GVLVFGDRGTGKSTAVRALA 66
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 42.0 bits (99), Expect = 9e-05
Identities = 27/127 (21%), Positives = 59/127 (46%), Gaps = 7/127 (5%)
Query: 103 DKKKMQANLEGAIVMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGIL 162
D++K Q +L ++ M + ++ + ++ ++ + +A+ +F + + KG+
Sbjct: 1 DERKRQESLIQSMFMPREILRAS-LSDVDLNDDGRIKAIRFAERFVAEYEPGKKM-KGLY 58
Query: 163 LFGPPGTGKSYLAKAVATEA---NNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRP 219
L G G GK+YL A+A E N S+ V +L + L S + +L +
Sbjct: 59 LHGSFGVGKTYLLAAIANELAKRNVSSLI-VYVPELFRE-LKHSLQDQTMNEKLDYIKKV 116
Query: 220 SIIFIDE 226
++ +D+
Sbjct: 117 PVLMLDD 123
>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 516
Score = 42.6 bits (100), Expect = 1e-04
Identities = 19/102 (18%), Positives = 30/102 (29%), Gaps = 10/102 (9%)
Query: 91 KKESDEDDSEDPDKKKMQANLEGAIVM--EK--PNVKWTDVAGLEAAKEALKEAV----- 141
+ Q + + K P V G + + LK +
Sbjct: 2 GSSHHHHHHSSGLEVLFQGPHMASDKLWTVKYAPT-NLQQVCGNKGSVMKLKNWLANWEN 60
Query: 142 ILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATEAN 183
F ++ +L+GPPG GK+ A VA E
Sbjct: 61 SKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG 102
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 41.4 bits (98), Expect = 3e-04
Identities = 25/72 (34%), Positives = 40/72 (55%), Gaps = 16/72 (22%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVS--SSDLVSKWLGESEKLVKTLFELARAHR 218
++L+GPPGTGK+ LA+ +A A N+ +S +S G E ++ E AR +R
Sbjct: 53 MILWGPPGTGKTTLAEVIARYA-NADVERISAVTS-------GVKE--IREAIERARQNR 102
Query: 219 ----PSIIFIDE 226
+I+F+DE
Sbjct: 103 NAGRRTILFVDE 114
>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
Length = 189
Score = 38.8 bits (90), Expect = 8e-04
Identities = 19/127 (14%), Positives = 39/127 (30%), Gaps = 23/127 (18%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKL-----------VKT 209
++ GP G GKS K +A + +NS D+++ + + K
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQLDNSA---YIEGDIINHMVVGGYRPPWESDELLALTWKN 61
Query: 210 LFELARAHR---PSIIFIDERIDRGISNALFLLLSGVGNDMDGILVLGATNIPWVLDAAI 266
+ +L ++ + + V + ++L W +
Sbjct: 62 ITDLTVNFLLAQNDVVLDYIAFPDEAEALAQTVQAKVDDVEIRFIIL------WTNREEL 115
Query: 267 RRRFEKR 273
RR R
Sbjct: 116 LRRDALR 122
>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.10A {Homo sapiens}
Length = 78
Score = 36.3 bits (85), Expect = 0.001
Identities = 13/44 (29%), Positives = 24/44 (54%), Gaps = 5/44 (11%)
Query: 278 LPELNARLFMFRHHLGNTRN-TISDE-NLKELAKRTEGYSGADI 319
P ARL + + H +R ++ NL+++A+ G SGA++
Sbjct: 2 PPNEEARLDILKIH---SRKMNLTRGINLRKIAELMPGASGAEV 42
>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 384
Score = 39.4 bits (91), Expect = 0.001
Identities = 33/193 (17%), Positives = 56/193 (29%), Gaps = 41/193 (21%)
Query: 161 ILLFGPPGTGKSYLAKAVATE---------------------ANNSTFFSVSSSDLVSKW 199
L G GTGK++++K + E S L K
Sbjct: 48 NLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKL 107
Query: 200 LGE-------SEKLVKTLFELARAHRPSIIFIDE----RIDRGISNALFLLLSGVGNDMD 248
G + + + +II++DE RG L+ LL N
Sbjct: 108 TGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDAN--- 164
Query: 249 GILVLGATNIPWV---LDAAIRRRFEKRIYIALPELN--ARLFMFRHHLGNTRNTISDEN 303
I V+ +N V ++ + + + + G + T DE
Sbjct: 165 -ISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEI 223
Query: 304 LKELAKRTEGYSG 316
L +A + G
Sbjct: 224 LSYIAAISAKEHG 236
>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural
genomics, PSI, protein struc initiative; 3.20A
{Agrobacterium tumefaciens str} SCOP: c.37.1.25
Length = 191
Score = 38.1 bits (88), Expect = 0.002
Identities = 26/141 (18%), Positives = 49/141 (34%), Gaps = 8/141 (5%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPS 220
+LL G PG+GKS +A+A+A SD + ++ + ++ L + + +R
Sbjct: 12 LLLSGHPGSGKSTIAEALANLPGVPKV--HFHSDDLWGYI-KHGRIDPWLPQSHQQNRMI 68
Query: 221 IIFIDERIDRGISNALFLLLSGV--GNDMDGILVLGATNIPWVLDA---AIRRRFEKRIY 275
+ + R F++L GV + + L VL R R
Sbjct: 69 MQIAADVAGRYAKEGYFVILDGVVRPDWLPAFTALARPLHYIVLRTTAAEAIERCLDRGG 128
Query: 276 IALPELNARLFMFRHHLGNTR 296
+L + +
Sbjct: 129 DSLSDPLVVADLHSQFADLGA 149
>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate
hydrolases fold, S genomics, joint center for structural
genomics, JCSG; HET: MSE; 1.70A {Chloroflexus
aurantiacus}
Length = 193
Score = 37.6 bits (87), Expect = 0.002
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWL 200
I++ G P TGK+ L++A+AT + S D + +
Sbjct: 8 IIVTGHPATGKTTLSQALATGLR----LPLLSKDAFKEVM 43
>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone,
hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*
Length = 310
Score = 37.6 bits (88), Expect = 0.003
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 7/77 (9%)
Query: 159 KGILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLG--ESEKLVKTL----FE 212
K IL+ GP G GK+ +A+ +A AN ++ ++G +
Sbjct: 51 KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGA 110
Query: 213 LARAHRPSIIFIDERID 229
+ + I+FIDE ID
Sbjct: 111 IDAVEQNGIVFIDE-ID 126
>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase;
HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP:
c.37.1.20 PDB: 1s9h_A
Length = 267
Score = 37.6 bits (87), Expect = 0.003
Identities = 17/94 (18%), Positives = 36/94 (38%), Gaps = 18/94 (19%)
Query: 151 FTGKRVPWKG-ILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKT 209
+ K+ + I LFGP TGK+ +A+A+A + ++ +
Sbjct: 96 WATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPFYGCVNWTNEN--------------- 140
Query: 210 LFELARAHRPSIIFIDE-RIDRGISNALFLLLSG 242
F +I+ +E ++ + + +L G
Sbjct: 141 -FPFNDCVDKMVIWWEEGKMTAKVVESAKAILGG 173
>2r2a_A Uncharacterized protein; zonular occludens toxin, structural
genomics, APC84050.2, PS protein structure initiative;
HET: MSE; 1.82A {Neisseria meningitidis MC58}
Length = 199
Score = 37.0 bits (85), Expect = 0.004
Identities = 29/178 (16%), Positives = 53/178 (29%), Gaps = 38/178 (21%)
Query: 161 ILLFGPPGTGKSYLA------------------KAVATEANN----STFFSVSSSDLVSK 198
L+ G PG+GK+ + V T T+ + L
Sbjct: 8 CLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKS 67
Query: 199 WLGESEKLVKTLFELARAHRPSIIFIDE--RIDRGISNALFLLLSGVGNDM--------D 248
+ + + SI+ +DE + S S + ++
Sbjct: 68 TDEQLSAHDMYEWIKKPENIGSIVIVDEAQDVWPARSAG-----SKIPENVQWLNTHRHQ 122
Query: 249 GILVLGATNIPWVLDAAIRRRFEKRIYIALPELNAR-LFMFRHHLGNTRNTISDENLK 305
GI + T P +LD +R K +IA ++ R L ++ + S
Sbjct: 123 GIDIFVLTQGPKLLDQNLRTLVRKHYHIASNKMGMRTLLEWKICADDPVKMASSAFSS 180
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 37.8 bits (88), Expect = 0.004
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFF 188
+ L GPPG KS +A+ + N+ F
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAF 71
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 35.5 bits (81), Expect = 0.010
Identities = 14/97 (14%), Positives = 32/97 (32%), Gaps = 5/97 (5%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPS 220
I+L G GKS + + + + D + + + + + E S
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWL--AFGVDSLIEAMPLKMQSAEGGIEFDADGGVS 63
Query: 221 IIFIDERIDRGISNALFLLLSGVGND--MDGILVLGA 255
I ++ + + + G +D + + GA
Sbjct: 64 IGPEFRALEGAWAEGVVAMARA-GARIIIDDVFLGGA 99
>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
Length = 184
Score = 35.5 bits (81), Expect = 0.011
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVS 191
IL+ G PGTGK+ +A+ +A E + V
Sbjct: 13 ILITGTPGTGKTSMAEMIAAELDGFQHLEVG 43
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA
replication initation factor, cell cycle control factor;
HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11
c.37.1.20
Length = 389
Score = 35.9 bits (82), Expect = 0.013
Identities = 27/192 (14%), Positives = 59/192 (30%), Gaps = 32/192 (16%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSV---------SSSDLVSK-----------WL 200
L G PGTGK+ + + + T + + ++ +
Sbjct: 47 ATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRG 106
Query: 201 GESEKLVKTLFELARAHRPSIIFIDERIDRGISNALFLLLS-----GVGNDMDGILVLGA 255
++ + L E R + + + + L + LV+
Sbjct: 107 LSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVG 166
Query: 256 TNIPWV--LDAAIRRRFEKRIYIALP----ELNARLFMFRHHLGNTRNTISDENLKELAK 309
N + LD + R K + P ++ + + R G + S++ L+ +A
Sbjct: 167 HNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFD-ILLDRAKAGLAEGSYSEDILQMIAD 225
Query: 310 RTEGYSGADIST 321
T + D +
Sbjct: 226 ITGAQTPLDTNR 237
>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*
Length = 260
Score = 35.6 bits (82), Expect = 0.014
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 6/70 (8%)
Query: 161 ILLFGPPGTGKSYLAKAVATE-ANNSTFFSVSSSDLVSKWLG-----ESEKLVKTLFELA 214
I+L G PG GKS +K +A + N+ V SDL+ + E + K+ + L
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPVWKEKYEEFIKKSTYRLI 66
Query: 215 RAHRPSIIFI 224
+ + I
Sbjct: 67 DSALKNYWVI 76
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 35.5 bits (82), Expect = 0.022
Identities = 22/87 (25%), Positives = 31/87 (35%), Gaps = 14/87 (16%)
Query: 96 EDDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGLEAAKEALKEAVILPIKFPQLFTGKR 155
E + ++ +E P V G E A E +K A
Sbjct: 12 LAPREYGESLELGIEFTTTEEIEVPEKLIDQVIGQEHAVEVIKTAANQK----------- 60
Query: 156 VPWKGILLFGPPGTGKSYLAKAVATEA 182
+ +LL G PGTGKS L +A+A
Sbjct: 61 ---RHVLLIGEPGTGKSMLGQAMAELL 84
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 34.4 bits (79), Expect = 0.023
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEK 205
IL G PG+GKS A+ + F++++ D + E+
Sbjct: 5 ILTIGCPGSGKSTWAREFIAKNPG--FYNINRDDYRQSIMAHEER 47
>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
Length = 377
Score = 35.0 bits (80), Expect = 0.028
Identities = 22/99 (22%), Positives = 37/99 (37%), Gaps = 8/99 (8%)
Query: 154 KRVPWK-GILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFE 212
+P K L GP +GK+ LA A+ D ++ LG + +FE
Sbjct: 164 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFE 223
Query: 213 LARAHRPSIIFIDERIDRGISNALFLLLSGVGNDMDGIL 251
+ D +GI+N L + + +DG +
Sbjct: 224 DVKGT--GGESRDLPSGQGINN-----LDNLRDYLDGSV 255
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 34.9 bits (80), Expect = 0.033
Identities = 19/82 (23%), Positives = 40/82 (48%), Gaps = 8/82 (9%)
Query: 126 DVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATEANNS 185
+ G AA+ A + ++ ++ + +L+ G PGTGK+ +A +A
Sbjct: 45 GMVGQLAARRAAGVVL-------EMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD 97
Query: 186 T-FFSVSSSDLVSKWLGESEKL 206
T F +++ S++ S + ++E L
Sbjct: 98 TPFTAIAGSEIFSLEMSKTEAL 119
>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
Length = 301
Score = 34.3 bits (78), Expect = 0.038
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEK 205
IL G PG+GKS A+ + F++++ D + E+
Sbjct: 5 ILTIGCPGSGKSTWAREFIAKNPG--FYNINRDDYRQSIMAHEER 47
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATPase, ATP-binding,
nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus
fulgidus}
Length = 226
Score = 34.1 bits (79), Expect = 0.038
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 12/56 (21%)
Query: 126 DVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATE 181
+V G + + LK V K +P +L GPPGTGK+ A A+A +
Sbjct: 18 EVVGQDEVIQRLKGYV----------ERKNIP--HLLFSGPPGTGKTATAIALARD 61
>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin,
S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber
suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B*
2dvw_B*
Length = 83
Score = 31.9 bits (73), Expect = 0.040
Identities = 11/44 (25%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 281 LNARLFMFRHHLGNTRN-TISDE-NLKELAKRTEGYSGADISTL 322
+ +F T +S+E +L++ R + SGADI+++
Sbjct: 3 RRQKRLIFSTI---TSKMNLSEEVDLEDYVARPDKISGADINSI 43
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATP ATP-binding,
nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus
fulgidus} PDB: 2chv_A
Length = 319
Score = 34.2 bits (79), Expect = 0.050
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 12/56 (21%)
Query: 126 DVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATE 181
+V G + + LK V K +P +L GPPGTGK+ A A+A +
Sbjct: 18 EVVGQDEVIQRLKGYV----------ERKNIP--HLLFSGPPGTGKTATAIALARD 61
>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins
(A/B), protein binding, transferase, phosphotransferase;
HET: ADP; 1.76A {Homo sapiens} PDB: 3iik_A 3iil_A*
3iim_A* 1rkb_A
Length = 180
Score = 33.5 bits (76), Expect = 0.054
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 144 PIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATEAN 183
P+ P+ ILL G PG GK+ L K +A+++
Sbjct: 2 PLGSPEFMLLPN-----ILLTGTPGVGKTTLGKELASKSG 36
>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP,
replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP:
a.80.1.1 c.37.1.20
Length = 327
Score = 33.9 bits (78), Expect = 0.060
Identities = 24/84 (28%), Positives = 32/84 (38%), Gaps = 24/84 (28%)
Query: 107 MQANLEGAIVMEKPNVKWT---------DVAGLEAAKEALKEAVILPIKFPQLFTGKRVP 157
M + V+EKP W D+ G E + LK V +P
Sbjct: 1 MSEEIREVKVLEKP---WVEKYRPQRLDDIVGQEHIVKRLKHYV----------KTGSMP 47
Query: 158 WKGILLFGPPGTGKSYLAKAVATE 181
+L GPPG GK+ A A+A E
Sbjct: 48 --HLLFAGPPGVGKTTAALALARE 69
>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide,
hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP:
a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*
Length = 324
Score = 33.7 bits (78), Expect = 0.062
Identities = 13/21 (61%), Positives = 16/21 (76%)
Query: 161 ILLFGPPGTGKSYLAKAVATE 181
+LLFGPPG GK+ LA +A E
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHE 61
>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase,
winged-helix domain, ATP hydrolysis, walker A, walker B,
sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga
maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A*
1in8_A* 1in7_A* 1j7k_A*
Length = 334
Score = 33.7 bits (78), Expect = 0.067
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 161 ILLFGPPGTGKSYLAKAVATE 181
+LL GPPG GK+ LA +A+E
Sbjct: 54 VLLAGPPGLGKTTLAHIIASE 74
>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats,
A-helical domain, structural genomics, NPPSFA; 2.20A
{Saccharomyces cerevisiae} PDB: 2dzo_B
Length = 82
Score = 31.2 bits (71), Expect = 0.071
Identities = 10/41 (24%), Positives = 18/41 (43%), Gaps = 5/41 (12%)
Query: 284 RLFMFRHHLGNTRN-TISDE-NLKELAKRTEGYSGADISTL 322
R +F +++ E +L L R + SGA I+ +
Sbjct: 3 RRLIFGTI---ASKMSLAPEADLDSLIIRNDSLSGAVIAAI 40
>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM:
PF02562, ST genomics, PSI-2, protein structure
initiative; 2.35A {Corynebacterium glutamicum atcc
13032}
Length = 208
Score = 33.3 bits (77), Expect = 0.073
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 165 GPPGTGKSYLAKAVATEA 182
GP G+GK+YLA A A +A
Sbjct: 29 GPAGSGKTYLAMAKAVQA 46
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 33.7 bits (78), Expect = 0.073
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 161 ILLFGPPGTGKSYLAKAVATE 181
IL GP G GK+ LA ++ E
Sbjct: 58 ILFSGPAGLGKTTLANIISYE 78
>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
Length = 279
Score = 33.5 bits (76), Expect = 0.080
Identities = 13/51 (25%), Positives = 16/51 (31%), Gaps = 14/51 (27%)
Query: 144 PIKFPQLFTGKRVP----WKGI------LLFGPPGTGKSYL----AKAVAT 180
PI + F P + L P G GKS L A +A
Sbjct: 6 PINILEAFAAAPPPLDYVLPNMVAGTVGALVSPGGAGKSMLALQLAAQIAG 56
>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
Length = 179
Score = 32.9 bits (75), Expect = 0.080
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 7/75 (9%)
Query: 159 KGILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHR 218
K IL+ G PG+GKS AK + E + SD+V K K + L + A+ R
Sbjct: 2 KVILITGMPGSGKSEFAK-LLKERG---AKVIVMSDVVRKRYSIEAKPGERLMDFAKRLR 57
Query: 219 P---SIIFIDERIDR 230
+ ++
Sbjct: 58 EIYGDGVVARLCVEE 72
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 386
Score = 33.5 bits (76), Expect = 0.083
Identities = 34/197 (17%), Positives = 67/197 (34%), Gaps = 35/197 (17%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSV----------------------SSSDLVSK 198
I ++G GTGK+ + K V ++ + S V
Sbjct: 48 IFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPF 107
Query: 199 WLGESEKLVKTLFELARAHRPSIIFIDERIDRGISNA---LFLLLSGVGNDMDG--ILVL 253
+L + L + R + ++ + + ID + + LS + ++++ I +
Sbjct: 108 TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFI 167
Query: 254 GATN-IPWV--LDAAIRRRFEKRIYIALP----ELNARLFMFRHHLGNTRNTISDENLKE 306
G TN + +V LD ++ + I P EL + R + + D +K
Sbjct: 168 GITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEEL-EDILTKRAQMAFKPGVLPDNVIKL 226
Query: 307 LAKRTEGYSGADISTLE 323
A G L+
Sbjct: 227 CAALAAREHGDARRALD 243
>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*
Length = 305
Score = 33.0 bits (75), Expect = 0.10
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 154 KRVPWKG-ILLFGPPGTGKSYLAKAVA 179
K +P K + GPP TGKS L ++
Sbjct: 121 KGIPKKNCLAFIGPPNTGKSMLCNSLI 147
>3r9v_A Invasin IPAD; type III secretion system, TIP protein, deoxycholate,
cell I; HET: DXC; 1.90A {Shigella flexneri} PDB: 2jaa_A
2j0n_A
Length = 286
Score = 33.0 bits (74), Expect = 0.12
Identities = 21/106 (19%), Positives = 37/106 (34%), Gaps = 4/106 (3%)
Query: 6 KGINIAIKATEADKNKNYEEALKLYTHSVQYFLHAL----KYEITSAEGKQSIREKCDEY 61
I +I K YE A+ YT Q F L + S++ + +
Sbjct: 100 AKIANSINDINEQYLKVYEHAVSSYTQMYQDFSAVLSSLAGWISPGGNDGNSVKLQVNSL 159
Query: 62 LARAEKLKEYLKKGKKQPVKDGESRTKDDKKESDEDDSEDPDKKKM 107
E+LKE K P + S+ + +K ++ + +K
Sbjct: 160 KKALEELKEKYKDKPLYPANNTVSQEQANKWLTELGGTIGKVSQKN 205
>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}
Length = 208
Score = 32.5 bits (75), Expect = 0.13
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 159 KGIL--LFGPPGTGKSYLAKAVATEANNSTFFSVS 191
+G+L L GP G GK + +AV + S +S+S
Sbjct: 7 RGLLIVLSGPSGVGKGTVREAVFKDPETSFDYSIS 41
>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone,
chaperone-protein binding complex; HET: DNA; 3.80A
{Saccharomyces cerevisiae} PDB: 4a3v_B*
Length = 88
Score = 30.6 bits (70), Expect = 0.14
Identities = 7/42 (16%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 281 LNARLFMFRHHLGNTRNTISDENLKELAKRTEGYSGADISTL 322
L R +FR H + + + +++ +GA++ ++
Sbjct: 3 LEGRANIFRIHSKSM-SVERGIRWELISRLCPNSTGAELRSV 43
>2xze_A STAM-binding protein; hydrolase-protein transport complex; 1.75A
{Homo sapiens}
Length = 146
Score = 31.6 bits (71), Expect = 0.14
Identities = 18/73 (24%), Positives = 30/73 (41%), Gaps = 5/73 (6%)
Query: 7 GINIAIKATEADKNKNYEEALKLYTHSVQYFLHALKY-----EITSAEGKQSIREKCDEY 61
G+ I A+ + N E A LY + F+ L E K ++++ +
Sbjct: 40 GVEIIRMASIYSEEGNIEHAFILYNKYITLFIEKLPKHRDYKSAVIPEKKDTVKKLKEIA 99
Query: 62 LARAEKLKEYLKK 74
+AE+LK L K
Sbjct: 100 FPKAEELKAELLK 112
>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+
protein; 2.10A {Human papillomavirus type 18} SCOP:
c.37.1.20
Length = 212
Score = 32.1 bits (73), Expect = 0.16
Identities = 15/58 (25%), Positives = 20/58 (34%), Gaps = 9/58 (15%)
Query: 124 WTDVAGLEAAKEALKEAVILPIKFPQLFTG--KRVPWKG-ILLFGPPGTGKSYLAKAV 178
W + L+ I I F K P K ++ GP TGKSY +
Sbjct: 27 WRPIVQF------LRYQQIEFITFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSF 78
>2v9l_A Rhamnulose-1-phosphate aldolase; entropy index, metal-binding,
oligomerization, zinc, lyase, class II, cytoplasm; HET:
PGO; 1.23A {Escherichia coli} PDB: 2uyv_A* 1ojr_A
2v9g_A* 1gt7_A* 2v9n_A* 2uyu_A* 2v9m_A* 2v9o_A 2v9e_A
2v9f_A 2v9i_A 2v29_A 2v2a_A* 2v2b_A
Length = 274
Score = 32.2 bits (73), Expect = 0.16
Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 249 GILVLGATNIPWVLDAAIRRRFEKRIYIALPELNARLFMFRHHLGNTRNTISDENLKELA 308
G+ G T LD I E +A++ + + +G + TIS E L L
Sbjct: 213 GVFGSGPT-----LDETFGL-------IDTAEKSAQVLVKVYSMGGMKQTISREELIALG 260
Query: 309 KR 310
KR
Sbjct: 261 KR 262
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 32.9 bits (75), Expect = 0.16
Identities = 12/41 (29%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 159 KGILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKW 199
+G ++ P G+GK+++A A E + T V + L +W
Sbjct: 110 RGCIV-LPTGSGKTHVAMAAINELSTPTLIVVPTLALAEQW 149
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 32.5 bits (73), Expect = 0.19
Identities = 27/202 (13%), Positives = 61/202 (30%), Gaps = 40/202 (19%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNST-------------FFSVSSSDLVSKWLGES---- 203
LL+G GTGK+ +A+ V + V+ + E+
Sbjct: 47 ALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVR 106
Query: 204 --------EKLVKTLFELARAHRPSIIFIDERIDR--------GISNALFLLLSGVGNDM 247
++ + L + R I + + ID + + + +G+ +
Sbjct: 107 VPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRV 166
Query: 248 DGILVLGATNIPWV--LDAAIRRRFEKRIYIALP----ELNARLFMFRHHLGNTRNTISD 301
LV ++ +V L+ ++ + + P +L + R +
Sbjct: 167 WVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQL-RDILETRAEEAFNPGVLDP 225
Query: 302 ENLKELAKRTEGYSGADISTLE 323
+ + A G L+
Sbjct: 226 DVVPLCAALAAREHGDARRALD 247
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 32.2 bits (72), Expect = 0.21
Identities = 13/82 (15%), Positives = 25/82 (30%), Gaps = 17/82 (20%)
Query: 159 KGILLFGPPGTGKSYLAKAVATEANNSTFFSVS-----------------SSDLVSKWLG 201
ILL G G GK+ + + E + D V
Sbjct: 33 IAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSFRSQHPHYLELQQEYGKDSVEYTKD 92
Query: 202 ESEKLVKTLFELARAHRPSIIF 223
+ K+V++L + +++
Sbjct: 93 FAGKMVESLVTKLSSLGYNLLI 114
>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
Length = 178
Score = 31.5 bits (71), Expect = 0.21
Identities = 23/159 (14%), Positives = 48/159 (30%), Gaps = 47/159 (29%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTF-----------------FSV----SSSDLVSKW 199
I++ G PG GK+ L K + F + + S
Sbjct: 3 IIITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKKKIFSSK 62
Query: 200 LGESEKLV------------------KTLFELARAHRPSIIFIDE-----RIDRGISNAL 236
S+KLV + + A+ R +I IDE + + +
Sbjct: 63 FFTSKKLVGSYGVNVQYFEELAIPILERAYREAKKDRRKVIIIDEIGKMELFSKKFRDLV 122
Query: 237 FLLLSGVGNDMDGILVLGATNIPWVLDAAIRRRFEKRIY 275
++ ++ + + ++ ++ IRR +
Sbjct: 123 RQIMHDPNVNV--VATIPIRDVHPLVK-EIRRLPGAVLI 158
>2xdq_A Light-independent protochlorophyllide reductase S; oxidoreductase,
DPOR, (bacterio)chlorophyll biosynthesis,
photosynthesis; 2.40A {Thermosynechococcus elongatus}
Length = 460
Score = 32.1 bits (72), Expect = 0.27
Identities = 14/66 (21%), Positives = 28/66 (42%), Gaps = 3/66 (4%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSD--LVSKWLGESEKLVKTLFELARAHR 218
L+ G G +L A+ ++++ + +S L + E+L + E+ R
Sbjct: 39 FLVIGTKTCG-YFLQNAMGVMIFAEPRYAMAELEEGDISAQLNDYEELKRLCLEIKRDRN 97
Query: 219 PSIIFI 224
PS+I
Sbjct: 98 PSVIVW 103
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure
initiati YORK structural genomics research consortium,
nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 31.2 bits (70), Expect = 0.28
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 161 ILLFGPPGTGKSYLAKAVA 179
I++ G G+GKS + +A+A
Sbjct: 21 IVVMGVSGSGKSSVGEAIA 39
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 31.5 bits (70), Expect = 0.30
Identities = 17/136 (12%), Positives = 37/136 (27%), Gaps = 20/136 (14%)
Query: 159 KGILLFGPPGTGKSYLAKAVATEANNSTFFSVS-----------------SSDLVSKWLG 201
LL G PG+GK+ L A+ E + + D+V
Sbjct: 34 TAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQQHPNFDELVKLYEKDVVKHVTP 93
Query: 202 ESEKLVKTLFELARAHRPSIIFIDERIDRGISNALFLLLSGVGNDMDGILVLGATNIPWV 261
S ++ + + +++ + +L G + ++ +
Sbjct: 94 YSNRMTEAIISRLSDQGYNLVIEGTGRTTDVPIQTATMLQAKGYETKMYVMAVPKINSY- 152
Query: 262 LDAAIRRRFEKRIYIA 277
R+E
Sbjct: 153 --LGTIERYETMYADD 166
>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide-
binding; HET: 5GP; 1.9A {Staphylococcus aureus}
Length = 207
Score = 31.3 bits (72), Expect = 0.32
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 159 KGIL--LFGPPGTGKSYLAKAVATEANNSTFFSVS 191
KG+L L GP G GK + K + + + S +S+S
Sbjct: 5 KGLLIVLSGPSGVGKGTVRKRIFEDPSTSYKYSIS 39
>2j0o_A Invasin IPAD; type III secretion, cell invasion, T3SS, plasmid,
virulence; 3.00A {Shigella flexneri} SCOP: a.250.1.1
Length = 318
Score = 31.5 bits (70), Expect = 0.39
Identities = 21/105 (20%), Positives = 37/105 (35%), Gaps = 4/105 (3%)
Query: 6 KGINIAIKATEADKNKNYEEALKLYTHSVQYFLHAL----KYEITSAEGKQSIREKCDEY 61
I +I K YE A+ YT Q F L + S++ + +
Sbjct: 122 AKIANSINDINEQYLKVYEHAVSSYTQMYQDFSAVLSSLAGWISPGGNDGNSVKLQVNSL 181
Query: 62 LARAEKLKEYLKKGKKQPVKDGESRTKDDKKESDEDDSEDPDKKK 106
E+LKE K P + S+ + +K ++ + +K
Sbjct: 182 KKALEELKEKYKDKPLYPANNTVSQEQANKWLTELGGTIGKVSQK 226
>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta
protein., structural genomics, PSI-2, protein structure
initiative; HET: G3D; 2.20A {Bacillus subtilis} PDB:
2axp_A*
Length = 173
Score = 30.4 bits (69), Expect = 0.42
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 161 ILLFGPPGTGKSYLAKAVATE 181
I+L GP KS +A ++ E
Sbjct: 4 IILEGPDCCFKSTVAAKLSKE 24
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain,
PIN-tower interface, coupling hydrolysis to DNA
unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Length = 459
Score = 31.2 bits (70), Expect = 0.45
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 6/41 (14%)
Query: 138 KEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAV 178
K A + +K + K + + GP GTG + L K +
Sbjct: 31 KNAFNIVMKA--IKEKKHH----VTINGPAGTGATTLTKFI 65
>3a00_A Guanylate kinase, GMP kinase; domain movement, dimerization,
acetylation, ATP-binding, nucleotide-binding,
phosphoprotein, transferase; 1.80A {Saccharomyces
cerevisiae} PDB: 1ex6_A* 1ex7_A 1gky_A* 2zzz_A 3sqk_A
2zzy_A
Length = 186
Score = 30.5 bits (70), Expect = 0.49
Identities = 16/31 (51%), Positives = 20/31 (64%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVS 191
I++ GP GTGKS L K + E +S FSVS
Sbjct: 4 IVISGPSGTGKSTLLKKLFAEYPDSFGFSVS 34
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 30.3 bits (68), Expect = 0.60
Identities = 25/164 (15%), Positives = 45/164 (27%), Gaps = 21/164 (12%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSV-SSSDLVSKWLGES-----------EKLVK 208
I + GP G GK++ A + S F + K ++
Sbjct: 8 IWINGPFGVGKTHTAHTLHERLPGSFVFEPEEMGQALRKLTPGFSGDPQEHPMWIPLMLD 67
Query: 209 TLFELARAHRPSIIFIDERIDRGISNALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRR 268
L +R +I D L L G + L A +
Sbjct: 68 ALQYASREAAGPLIVPVSISDTARHRRLMSGLKDRGLSVH-HFTLIAP------LNVVLE 120
Query: 269 RFEKRIYI--ALPELNARLFMFRHHLGNTRNTISDENLKELAKR 310
R + + + RL R T + +++A++
Sbjct: 121 RLRRDGQPQVNVGTVEDRLNELRGEQFQTHIDTAGLGTQQVAEQ 164
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 31.0 bits (70), Expect = 0.60
Identities = 9/22 (40%), Positives = 10/22 (45%)
Query: 161 ILLFGPPGTGKSYLAKAVATEA 182
IL G GTGK+ L A
Sbjct: 284 ILATGATGTGKTLLVSRFVENA 305
Score = 28.4 bits (63), Expect = 3.5
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 161 ILLFGPPGTGKSYLA 175
L+ G GTGK+ +
Sbjct: 42 TLVSGTSGTGKTLFS 56
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 30.6 bits (69), Expect = 0.67
Identities = 13/64 (20%), Positives = 23/64 (35%), Gaps = 7/64 (10%)
Query: 135 EALKEAVILPIKFPQLFTG--KRVPWKGILLFGPPGTGKSYLAKAVATEANNSTFFSVSS 192
E + + + L QLF+ K +LL G P L + A + +
Sbjct: 219 EEVGKMLAL-----QLFSCVGKNSERLHVLLAGYPVVCSEILHHVLDHLAPRGVYVDLRR 273
Query: 193 SDLV 196
++L
Sbjct: 274 TELT 277
>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus
musculus} SCOP: c.37.1.1
Length = 198
Score = 30.2 bits (69), Expect = 0.68
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVS 191
++L GP G GKS L K + E ++ FSVS
Sbjct: 7 VVLSGPSGAGKSTLLKKLFQEHSSIFGFSVS 37
>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*
Length = 175
Score = 30.0 bits (67), Expect = 0.70
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 161 ILLFGPPGTGKSYLAKAVATE 181
+L G G+GKS +A VA +
Sbjct: 11 YVLMGVSGSGKSAVASEVAHQ 31
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.9 bits (66), Expect = 0.71
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 7/37 (18%)
Query: 76 KKQPVKDGESRTKDDKKESDEDDSEDPDKKKMQANLE 112
+KQ +K ++ K DDS P ++A +E
Sbjct: 18 EKQALKKLQASLK-----LYADDSA-P-ALAIKATME 47
Score = 29.1 bits (64), Expect = 1.2
Identities = 6/15 (40%), Positives = 9/15 (60%), Gaps = 2/15 (13%)
Query: 18 DKN--KNYEEALKLY 30
+K K + +LKLY
Sbjct: 18 EKQALKKLQASLKLY 32
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 30.1 bits (67), Expect = 0.71
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 159 KGILLFGPPGTGKSYLAKAVATEANNS 185
+ + L GPPG GK+ L + +S
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEVLKSS 28
>2xut_A Proton/peptide symporter family protein; transport protein,
membrane protein, major facilitator super transporter;
3.62A {Shewanella oneidensis}
Length = 524
Score = 30.8 bits (70), Expect = 0.71
Identities = 14/83 (16%), Positives = 24/83 (28%), Gaps = 8/83 (9%)
Query: 230 RGISNALFLLLSGVGNDMDGILVLGATNI----PWVLDAAIRRRFEKRIYIALPELNARL 285
+G + + L VGN + + + V F+ + L A +
Sbjct: 439 KGTIMSFWTLSVTVGNLWVLLANVSVKSPTVTEQIVQTGMSVTAFQMFFFAGFAILAAIV 498
Query: 286 FM----FRHHLGNTRNTISDENL 304
F + R ENL
Sbjct: 499 FALYARSYQMQDHYRQATGSENL 521
>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+
molecular machine, hexamer, asymmetric,, ATP-BIN
chaperone, metal-binding; HET: ADP; 3.25A {Escherichia
coli} PDB: 3hte_A
Length = 363
Score = 30.6 bits (70), Expect = 0.72
Identities = 25/90 (27%), Positives = 41/90 (45%), Gaps = 38/90 (42%)
Query: 161 ILLFGPPGTGKSYLAKAVA---------------TEANNSTFFSVSSSDLVSKWLGES-E 204
ILL GP G+GK+ LA+ +A TEA ++GE E
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAG---------------YVGEDVE 98
Query: 205 KLVKTL-----FELARAHRPSIIFIDERID 229
+++ L +++ +A R I++ID+ ID
Sbjct: 99 NIIQKLLQKCDYDVQKAQR-GIVYIDQ-ID 126
>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
Length = 376
Score = 30.3 bits (69), Expect = 0.79
Identities = 25/90 (27%), Positives = 39/90 (43%), Gaps = 38/90 (42%)
Query: 161 ILLFGPPGTGKSYLAKAVA---------------TEANNSTFFSVSSSDLVSKWLGES-E 204
ILL GP G+GK+ +A+ +A TEA ++GE E
Sbjct: 75 ILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAG---------------YVGEDVE 119
Query: 205 KLVKTL-----FELARAHRPSIIFIDERID 229
++ L + + +A + I+FIDE ID
Sbjct: 120 NILTRLLQASDWNVQKAQK-GIVFIDE-ID 147
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 30.7 bits (70), Expect = 0.80
Identities = 23/76 (30%), Positives = 34/76 (44%), Gaps = 11/76 (14%)
Query: 162 LLFGPPGTGKSY----LAKAVATEA-----NNSTFFSVSSSDLV--SKWLGESEKLVKTL 210
LL G G GK+ LA + + T +S+ L+ +K+ G+ EK K L
Sbjct: 211 LLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKAL 270
Query: 211 FELARAHRPSIIFIDE 226
+ SI+FIDE
Sbjct: 271 LKQLEQDTNSILFIDE 286
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function
initiative, EFI, STRU genomics, transferase; 1.60A
{Janibacter SP}
Length = 200
Score = 30.0 bits (67), Expect = 0.80
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 161 ILLFGPPGTGKSYLAKAVA 179
+++ G G+GK+ +A VA
Sbjct: 32 VVVMGVSGSGKTTIAHGVA 50
>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
Length = 354
Score = 30.2 bits (68), Expect = 0.86
Identities = 19/108 (17%), Positives = 30/108 (27%), Gaps = 15/108 (13%)
Query: 126 DVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATEANNS 185
++ E LK P P L LL+GP GTGK A+
Sbjct: 15 ALSHNEELTNFLKSLSDQPRDLPHL-----------LLYGPNGTGKKTRCMALLESIFGP 63
Query: 186 TFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFIDER-IDRGI 232
+ + + + + + I D DR +
Sbjct: 64 GVYRLKIDVRQFVTASNRKLELNVVS---SPYHLEITPSDMGNNDRIV 108
>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural
genomics, structural genomics of pathogenic protozoa
consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}
Length = 204
Score = 29.8 bits (68), Expect = 0.91
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVS 191
+++ GP G GK L K V +E + FS+S
Sbjct: 15 LVVCGPSGVGKGTLIKKVLSEFPSRFRFSIS 45
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 30.2 bits (67), Expect = 0.91
Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 11/56 (19%)
Query: 125 TDVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVAT 180
+D+A L + LK+ K +L+ G PG GK+ +
Sbjct: 139 SDMAKLRTLRRLLKDGEPHVSSA-----------KVVLVDGVPGCGKTKEILSRVN 183
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 30.0 bits (68), Expect = 0.94
Identities = 11/38 (28%), Positives = 19/38 (50%)
Query: 162 LLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKW 199
+ P G+GK+++A A E + T V + L +W
Sbjct: 112 CIVLPTGSGKTHVAMAAINELSTPTLIVVPTLALAEQW 149
>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom
consortium, transferase; HET: EPE; 2.18A {Plasmodium
falciparum}
Length = 218
Score = 29.8 bits (68), Expect = 0.94
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVS 191
+++ GP G GK L K + E N +FSVS
Sbjct: 26 LVICGPSGVGKGTLIKKLLNEFPNYFYFSVS 56
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 30.3 bits (69), Expect = 1.0
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 13/61 (21%)
Query: 135 EALKEAVILPIKFPQLFTG-KRVPWKG-------ILLFGPPGTGKSYLAKAVATEANNST 186
LKEA+ L LF G +V IL+ G PGT KS + + ++ A +
Sbjct: 301 WELKEALAL-----ALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAV 355
Query: 187 F 187
+
Sbjct: 356 Y 356
>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
Length = 543
Score = 30.2 bits (69), Expect = 1.1
Identities = 17/35 (48%), Positives = 23/35 (65%), Gaps = 3/35 (8%)
Query: 159 KG-IL-LFGPPGTGKSYLAKAVATEANNSTFFSVS 191
KG IL L GPPG GK+ LAK++A ++ F +S
Sbjct: 107 KGPILCLAGPPGVGKTSLAKSIA-KSLGRKFVRIS 140
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 30.0 bits (67), Expect = 1.2
Identities = 9/50 (18%), Positives = 18/50 (36%), Gaps = 3/50 (6%)
Query: 134 KEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATEAN 183
K+ +++ P+K+ L + + GT + AV N
Sbjct: 98 KDHVEDVNFQPVKYSALTSNNEEC---TAVVARGGTANAIRIAAVDNPVN 144
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 30.3 bits (68), Expect = 1.3
Identities = 17/78 (21%), Positives = 34/78 (43%), Gaps = 10/78 (12%)
Query: 159 KGILLFGPPGTGKS-----YLAKAVATEANNSTFFSVSSSDLVSKWL-----GESEKLVK 208
+ ++L GPPG+GK+ L E + F S ++ +L+ K + +
Sbjct: 1305 RPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGE 1364
Query: 209 TLFELARAHRPSIIFIDE 226
T+ + + ++F DE
Sbjct: 1365 TVLRPTQLGKWLVVFCDE 1382
Score = 29.5 bits (66), Expect = 1.9
Identities = 14/144 (9%), Positives = 43/144 (29%), Gaps = 20/144 (13%)
Query: 17 ADKNKNYEEALKLYTHSV-QYFLHALK-YEITSAEGKQSIREKCDEYLARAEKLKE---- 70
+ N + + +++L + + E + + E+ +KL++
Sbjct: 1876 GEANIRLLKRQGRQNYVTPRHYLDFINQVVLLINEKRDQLEEEQLHLNIGLKKLRDTEAQ 1935
Query: 71 --YLKK--GKKQPVKDGESRTKDDKKESDEDDSEDPDKKKMQANLEGAIVMEKPNVKW-- 124
L+ +K D ++ + K + D + + K+ A + +
Sbjct: 1936 VKDLQVSLAQKNRELDVKNEQANQKLKQMVQDQQAAEIKQKDARELQVQLDVRNKEIAVQ 1995
Query: 125 --------TDVAGLEAAKEALKEA 140
+E +++
Sbjct: 1996 KVKAYADLEKAEPTGPLREEVEQL 2019
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 29.5 bits (66), Expect = 1.5
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 161 ILLFGPPGTGKSYLA 175
+LL G GTGK+ A
Sbjct: 33 VLLTGGTGTGKTTFA 47
>1kht_A Adenylate kinase; phosphotransferase, signaling protein,
transferase; HET: AMP; 2.50A {Methanococcus voltae}
SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A
Length = 192
Score = 28.9 bits (64), Expect = 1.5
Identities = 8/50 (16%), Positives = 19/50 (38%), Gaps = 2/50 (4%)
Query: 156 VPWKGILLFGPPGTGKSYLAKAVATEAN--NSTFFSVSSSDLVSKWLGES 203
+ K +++ G PG G + ++ + VS ++ + E
Sbjct: 1 MKNKVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFGSVMFEVAKEE 50
>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
Length = 340
Score = 29.3 bits (66), Expect = 1.7
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 161 ILLFGPPGTGKSYLAKAVATE 181
+L +GPPGTGK+ A+A E
Sbjct: 49 LLFYGPPGTGKTSTIVALARE 69
>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics,
structural genomics consortium, SGC, unknown function;
1.70A {Plasmodium falciparum}
Length = 187
Score = 28.9 bits (65), Expect = 1.8
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 12/76 (15%)
Query: 163 LFGPPGTGKSYLAKAVA---------TEANNSTFFSVSSSDLV--SKWLGE-SEKLVKTL 210
L G PG GK+ + + +A S+ S L+ +K+ G+ E+L L
Sbjct: 48 LLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDFEERLKSIL 107
Query: 211 FELARAHRPSIIFIDE 226
E+ A ++FIDE
Sbjct: 108 KEVQDAEGQVVMFIDE 123
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 28.4 bits (64), Expect = 1.9
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANN 184
I ++G G GKS+L +A +A
Sbjct: 39 IYVWGEEGAGKSHLLQAWVAQALE 62
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 1.9
Identities = 10/47 (21%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 55 REKCDEYLARAEK-LKEYLKKGKKQPVKDGESRTKDDKKESDEDDSE 100
+ E+ +A+K L+E+ ++ +Q K+ + DK + D++
Sbjct: 106 KVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDAD 152
Score = 26.7 bits (58), Expect = 9.2
Identities = 14/83 (16%), Positives = 32/83 (38%), Gaps = 13/83 (15%)
Query: 45 ITSAEGKQ----SIREKCDEYLARAEKLKEYLKKGKKQPVKDGESRTKDD-------KKE 93
I A+ SIR+ +E R ++L K +Q ++ + ++ + E
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQELDAASKV-MEQEWREKAKKDLEEWNQRQSEQVE 132
Query: 94 SDEDDSEDPDKKKMQANLEGAIV 116
++ ++ D K + I+
Sbjct: 133 KNKINNRIAD-KAFYQQPDADII 154
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 29.2 bits (65), Expect = 2.1
Identities = 8/37 (21%), Positives = 12/37 (32%)
Query: 144 PIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVAT 180
+ G + PG GKS+ AK +
Sbjct: 21 LVLVDIWKRGGDRTNSNWTILAKPGAGKSFTAKMLLL 57
>3pdi_A Nitrogenase MOFE cofactor biosynthesis protein NI; nitrogenase
cofactor maturation, NIFB, nifdk, NIFH; HET: CZL; 2.40A
{Azotobacter vinelandii}
Length = 483
Score = 29.0 bits (65), Expect = 2.2
Identities = 13/85 (15%), Positives = 35/85 (41%), Gaps = 14/85 (16%)
Query: 151 FTGKRVPWKGI-----LLFGPPG-TGKSYLAKAVATEANNSTFFSVSSS----DLVSKWL 200
F G ++ + ++ GP G S+ + + + +++ D++ +
Sbjct: 47 FDGAQIALLPVADVAHIVHGPIACAGSSWDNRGTRSSGPDLYRIGMTTDLTENDVI---M 103
Query: 201 GESEK-LVKTLFELARAHRPSIIFI 224
G +EK L + + ++ P +F+
Sbjct: 104 GRAEKRLFHAIRQAVESYSPPAVFV 128
>3eki_A High affinity transport system protein P37; TPP, cell membrane,
lipoprotein, membrane, transport protein, palmitate;
HET: TPP; 1.60A {Mycoplasma hyorhinis} PDB: 3e79_A*
3e78_A*
Length = 403
Score = 29.1 bits (64), Expect = 2.4
Identities = 23/110 (20%), Positives = 39/110 (35%), Gaps = 5/110 (4%)
Query: 21 KNYEEALKLYTHSVQYFLHALKYEITSAEGKQSIREKCDEYLARAEKLKEYLKKGKKQPV 80
KN + K + V + + ++ + + D + + KL E+LK
Sbjct: 84 KNANDKTKNF-DDVDFKVTPIQDFTVLLNNLSTDNPELDFGINASGKLVEFLKNNPGIIT 142
Query: 81 KDGESRTKDDKKESDED----DSEDPDKKKMQANLEGAIVMEKPNVKWTD 126
E+ T + ++D D D D A I +E P WTD
Sbjct: 143 PALETTTNSFVFDKEKDKFYVDGTDSDPLVKIAKEINKIFVETPYASWTD 192
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 29.1 bits (65), Expect = 2.4
Identities = 8/42 (19%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 131 EAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKS 172
+ + ++A + + + + +L+ G GTGKS
Sbjct: 28 KLKRMTREKAK--QVTVAGVPMPRDAEPRHLLVNGATGTGKS 67
>2vh1_A FTSQ, cell division protein FTSQ; potra, membrane, septation, cell
cycle, transmembrane, inner membrane; 2.7A {Escherichia
coli}
Length = 220
Score = 28.7 bits (63), Expect = 2.5
Identities = 11/57 (19%), Positives = 23/57 (40%), Gaps = 5/57 (8%)
Query: 224 IDERIDRGISNALFLLLSGVGNDMDGILVLGATNIPWVLDAAIRRRFEKRIYIALPE 280
I + I F+ D++ I +PW+ ++R+++ + I L E
Sbjct: 18 IRQSILALGEPGTFMTQ-----DVNIIQTQIEQRLPWIKQVSVRKQWPDELKIHLVE 69
>2a35_A Hypothetical protein PA4017; alpha-beta-alpha sandwich, structura
genomics, PSI, protein structure initiative; 1.50A
{Pseudomonas aeruginosa} SCOP: c.2.1.2
Length = 215
Score = 28.5 bits (64), Expect = 2.6
Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 12/80 (15%)
Query: 174 LAKAVATEANNSTFFSVSS----SDLVSKWL---GESEKLVKTL-FELARAHRPSIIFID 225
+ K A E + VS+ + + GE E+ ++ + RPS++F
Sbjct: 97 VGKR-ALEMGARHYLVVSALGADAKSSIFYNRVKGELEQALQEQGWPQLTIARPSLLFGP 155
Query: 226 E---RIDRGISNALFLLLSG 242
R+ ++ + +L G
Sbjct: 156 REEFRLAEILAAPIARILPG 175
>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics
center for infectious disease, ssgcid, ADP, DCMP, D
transferase; 2.00A {Mycobacterium smegmatis} PDB: 3r8c_A
4die_A*
Length = 233
Score = 28.6 bits (65), Expect = 2.6
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 165 GPPGTGKSYLAKAVATE 181
GP GTGKS +++ +A
Sbjct: 16 GPAGTGKSSVSRGLARA 32
>3eab_A Spastin; spastin, MIT, ESCRT, alternative splicing, ATP- binding,
cytoplasm, disease mutation, hereditary spastic
paraplegia, nucleotide-binding; 2.50A {Homo sapiens}
Length = 89
Score = 27.3 bits (60), Expect = 2.6
Identities = 13/63 (20%), Positives = 28/63 (44%), Gaps = 4/63 (6%)
Query: 8 INIAIKATEADKNKNYEEALKLYTHSVQYFLHALKYEIT----SAEGKQSIREKCDEYLA 63
I+IA++ E +K E+A++ Y ++ + +T E + ++ K L
Sbjct: 20 ISIALRIDEDEKAGQKEQAVEWYKKGIEELEKGIAVIVTGQGEQCERARRLQAKMMTNLV 79
Query: 64 RAE 66
A+
Sbjct: 80 MAK 82
>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli}
SCOP: c.37.1.20
Length = 195
Score = 28.5 bits (64), Expect = 2.7
Identities = 22/76 (28%), Positives = 34/76 (44%), Gaps = 12/76 (15%)
Query: 163 LFGPPGTGKSYLAKAVA---------TEANNSTFFSVSSSDLV--SKWLGE-SEKLVKTL 210
L G PG GK+ + + +A ++ LV +K+ GE E+L L
Sbjct: 48 LIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVL 107
Query: 211 FELARAHRPSIIFIDE 226
+LA+ I+FIDE
Sbjct: 108 NDLAKQEGNVILFIDE 123
>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation,
nucleotide metab transferase; HET: C5P; 1.50A {Thermus
thermophilus} PDB: 3akc_A* 3akd_A*
Length = 208
Score = 28.2 bits (64), Expect = 2.8
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 165 GPPGTGKSYLAKAVATE 181
GP +GKS +A+ VA
Sbjct: 9 GPSASGKSSVARRVAAA 25
>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure
initiative, midwest CENT structural genomics, MCSG;
2.79A {Clostridium symbiosum atcc 14940}
Length = 223
Score = 28.5 bits (63), Expect = 2.8
Identities = 14/75 (18%), Positives = 26/75 (34%), Gaps = 1/75 (1%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPS 220
I + G+G + K +A E F+ L S+ E+ + E A +
Sbjct: 17 ITIEREYGSGGRIVGKKLA-EELGIHFYDDDILKLASEKSAVGEQFFRLADEKAGNNLLY 75
Query: 221 IIFIDERIDRGISNA 235
+ +ID +
Sbjct: 76 RLGGGRKIDLHSKPS 90
>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia
coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E*
1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*
Length = 334
Score = 28.5 bits (64), Expect = 2.9
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 160 GILLFGPPGTGKSYLAKAVA 179
+L+ PG G L A++
Sbjct: 26 ALLIQALPGMGDDALIYALS 45
>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase,
transferase; NMR {Streptococcus pneumoniae} SCOP:
c.37.1.1
Length = 236
Score = 28.2 bits (64), Expect = 3.0
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 165 GPPGTGKSYLAKAVATE 181
GP +GKS +AK +A +
Sbjct: 23 GPASSGKSTVAKIIAKD 39
>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
Length = 353
Score = 28.6 bits (64), Expect = 3.0
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 161 ILLFGPPGTGKSYLAKAVATE 181
+L +GPPGTGK+ A+ E
Sbjct: 61 MLFYGPPGTGKTSTILALTKE 81
>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
Length = 357
Score = 28.5 bits (63), Expect = 3.2
Identities = 12/53 (22%), Positives = 17/53 (32%), Gaps = 8/53 (15%)
Query: 144 PIKFPQLFTG--------KRVPWKGILLFGPPGTGKSYLAKAVATEANNSTFF 188
P + F K + L+ G TGKS + K E N +
Sbjct: 8 PKDNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIY 60
>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 323
Score = 28.5 bits (64), Expect = 3.2
Identities = 11/56 (19%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 126 DVAGLEAAKEALKEAVILPIKFPQLFTGKRVPWKGILLFGPPGTGKSYLAKAVATE 181
D+ G + + L++ +P +++ G PG GK+ +A E
Sbjct: 22 DIVGNKETIDRLQQIA----------KDGNMP--HMIISGMPGIGKTTSVHCLAHE 65
>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like
domain, protein binding; 1.31A {Homo sapiens} SCOP:
c.37.1.1
Length = 180
Score = 27.8 bits (63), Expect = 3.3
Identities = 5/31 (16%), Positives = 15/31 (48%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVS 191
++L G G G+ ++ + T+ + + +
Sbjct: 8 LVLLGAHGVGRRHIKNTLITKHPDRFAYPIP 38
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 28.1 bits (63), Expect = 3.3
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 161 ILLFGPPGTGKSYLA 175
+LL G PGTGK+ +
Sbjct: 26 VLLSGGPGTGKTIFS 40
>2dl1_A Spartin; SPG20, MIT, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 116
Score = 27.4 bits (60), Expect = 3.4
Identities = 12/61 (19%), Positives = 21/61 (34%), Gaps = 3/61 (4%)
Query: 13 KATEADKNKNYEEALKLYTHSVQYFLHALKYEITSAEGKQSIREKCDEYLARAEKLKEYL 72
K D+ EEA Y + + L + +E + +K+KE L
Sbjct: 28 KGLNTDELGQKEEAKNYYKQGIGHLLRGISISSKESEHTG---PGWESARQMQQKMKETL 84
Query: 73 K 73
+
Sbjct: 85 Q 85
>3rkv_A Putative peptidylprolyl isomerase; structural genomics,
APC102156, PSI-biology, midwest center structural
genomics, MCSG; 2.41A {Caenorhabditis elegans}
Length = 162
Score = 27.7 bits (62), Expect = 3.6
Identities = 9/63 (14%), Positives = 20/63 (31%), Gaps = 4/63 (6%)
Query: 13 KATEADKNKNYEEALKLYTHSVQYFLHALKYEITSAEGKQSIRE-KCDEYLARAE---KL 68
K E K+Y+EA+ Y ++ + E + Y ++ +
Sbjct: 17 KGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNI 76
Query: 69 KEY 71
+
Sbjct: 77 GDL 79
>3ney_A 55 kDa erythrocyte membrane protein; structural genomics
consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A
{Homo sapiens}
Length = 197
Score = 27.9 bits (63), Expect = 3.7
Identities = 7/31 (22%), Positives = 16/31 (51%)
Query: 161 ILLFGPPGTGKSYLAKAVATEANNSTFFSVS 191
++L G G G+S++ A+ ++ + V
Sbjct: 22 LVLIGASGVGRSHIKNALLSQNPEKFVYPVP 52
>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A
{Staphylococcus aureus}
Length = 219
Score = 27.8 bits (63), Expect = 3.8
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 165 GPPGTGKSYLAKAVATE 181
GP GKS +AK VA+E
Sbjct: 10 GPAAAGKSTIAKRVASE 26
>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*
Length = 227
Score = 27.8 bits (63), Expect = 3.9
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 165 GPPGTGKSYLAKAVATE 181
GP G GK L KA+A
Sbjct: 12 GPSGAGKGTLCKAMAEA 28
>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system
kinase, STRU genomics, joint center for structural
genomics, JCSG; 1.95A {Silicibacter SP}
Length = 208
Score = 27.8 bits (62), Expect = 4.0
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 161 ILLFGPPGTGKSYLAKAVATEAN 183
+ L G PG+GKS L+ +A +
Sbjct: 25 VALSGAPGSGKSTLSNPLAAALS 47
>2cvh_A DNA repair and recombination protein RADB; filament formation,
homologous recombination, ATPase domain,
hyperthermophIle; HET: DNA; 2.20A {Thermococcus
kodakarensis} PDB: 2cvf_A*
Length = 220
Score = 27.9 bits (63), Expect = 4.2
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 161 ILLFGPPGTGKSYLA 175
++GP +GK+ LA
Sbjct: 23 TQVYGPYASGKTTLA 37
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 27.7 bits (62), Expect = 4.3
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 161 ILLFGPPGTGKSYLA 175
I L G PGTGK+ +
Sbjct: 26 IALTGEPGTGKTIFS 40
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 28.3 bits (63), Expect = 4.4
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 161 ILLFGPPGTGKSYLAKAVA 179
+ ++G G GKS LA
Sbjct: 150 VTIYGMAGCGKSVLAAEAV 168
>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling
protein; 2.85A {Arabidopsis thaliana}
Length = 338
Score = 28.1 bits (62), Expect = 4.4
Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 3/62 (4%)
Query: 13 KATEADKNKNYEEALKLYTHSVQYFLHALKYEITSAEGKQSIREKCDEYLARAE---KLK 69
K + EEA++ Y ++ Y +++ ++ K +L A KLK
Sbjct: 185 DGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLK 244
Query: 70 EY 71
Y
Sbjct: 245 RY 246
>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography,
emerald biostructures, ATP-binding, cytoplasm,
nucleotide-binding; HET: 5GP; 1.95A {Anaplasma
phagocytophilum}
Length = 231
Score = 27.5 bits (62), Expect = 4.9
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 159 KGIL--LFGPPGTGKSYLAKAVATEANNSTFFSVS 191
G++ L P G GK+ +A + + N+ SVS
Sbjct: 26 VGVILVLSSPSGCGKTTVANKLLEKQKNNIVKSVS 60
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 27.8 bits (61), Expect = 5.0
Identities = 27/208 (12%), Positives = 56/208 (26%), Gaps = 53/208 (25%)
Query: 161 ILLFGPPGTGKSYLAKAVATEAN---------NSTFFSVSSSDLVSKWLGESEKLVKT-- 209
LL G GKS L +A E + ++ +L+ + K
Sbjct: 34 TLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKELQSTISPFQKFQS 93
Query: 210 --------------------------LFELARAHRPSIIFIDE------RIDRGISNALF 237
L +L I+ DE RG L
Sbjct: 94 KFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLA 153
Query: 238 LLLSGVGNDMDGILVLGATNIPWVLD--------AAIRRRFEKRIYI-ALPELNARLFMF 288
L + + ++L + + + D + + R + + + + F
Sbjct: 154 LFAYAYDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEF-L 212
Query: 289 RHHLGNTRNTISDENLKELAKRTEGYSG 316
+ + + ++E + +G G
Sbjct: 213 KRGFREVNLDVPENEIEEAVELLDGIPG 240
>2vh2_A FTSQ, cell division protein FTSQ; potra, cell cycle; 3.4A {Yersinia
enterocolitica}
Length = 255
Score = 27.5 bits (60), Expect = 5.3
Identities = 7/24 (29%), Positives = 15/24 (62%)
Query: 257 NIPWVLDAAIRRRFEKRIYIALPE 280
+PW+ A++R+++ + I L E
Sbjct: 72 RLPWIQQASVRKQWPDELKIHLVE 95
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 27.9 bits (63), Expect = 5.7
Identities = 10/18 (55%), Positives = 14/18 (77%), Gaps = 1/18 (5%)
Query: 163 LF-GPPGTGKSYLAKAVA 179
+F GP G GK+ LA+A+A
Sbjct: 525 IFLGPTGVGKTELARALA 542
>2a9u_A Ubiquitin carboxyl-terminal hydrolase 8; coil-COIL, protease,
SH3-binding, thiol protease, UBL conjugation pathway,
structural genomics; 2.10A {Homo sapiens} SCOP:
a.118.23.1
Length = 144
Score = 27.0 bits (59), Expect = 6.3
Identities = 18/99 (18%), Positives = 34/99 (34%), Gaps = 4/99 (4%)
Query: 7 GINIAIKATEADKNKNYEEALKLYTHSVQYFLHALKY----EITSAEGKQSIREKCDEYL 62
+ I A E +++ E A LY V + K + + +
Sbjct: 42 ALKIFKTAEECRLDRDEERAYVLYMKYVTVYNLIKKRPDFKQQQDYFHSILGPGNIKKAV 101
Query: 63 ARAEKLKEYLKKGKKQPVKDGESRTKDDKKESDEDDSED 101
AE+L E LK ++ + KD ++E+ +
Sbjct: 102 EEAERLSESLKLRYEEAEVRKKLEEKDRQEEAQRLQQKR 140
>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase;
HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A*
3l0p_A*
Length = 223
Score = 27.2 bits (61), Expect = 6.6
Identities = 8/11 (72%), Positives = 10/11 (90%)
Query: 161 ILLFGPPGTGK 171
IL+FGP G+GK
Sbjct: 3 ILIFGPNGSGK 13
>2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T*
1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 3pio_S*
3pip_S* 1nkw_T 1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z
1pnu_T 1pny_T 1vor_W ...
Length = 237
Score = 27.4 bits (61), Expect = 6.8
Identities = 7/37 (18%), Positives = 18/37 (48%)
Query: 73 KKGKKQPVKDGESRTKDDKKESDEDDSEDPDKKKMQA 109
+ + V +G++ ++ K E+ ED++ + A
Sbjct: 200 SEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDNSDA 236
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A* 3syn_A*
Length = 296
Score = 27.3 bits (61), Expect = 6.9
Identities = 16/115 (13%), Positives = 31/115 (26%), Gaps = 14/115 (12%)
Query: 65 AEKLKEYLKKGKKQPVKDGESRTKDDKKESDEDDSEDPDKKKMQANLEGAIVME-----K 119
+ K++E Q E + + +K + ++ +
Sbjct: 10 SPKIEERTYP--PQIPAQQELGDFSAYQSVLPEPLRKAEKLLQETGIKESTKTNTLKKLL 67
Query: 120 PNVKWTDVAGLEAAKEALKE---AVILPIKFPQLFTGKRVPWKGILLFGPPGTGK 171
E L+E ++ Q + I+LFG G GK
Sbjct: 68 RFSVEAGGLTEENVVGKLQEILCDMLPSADKWQEPIHSKY----IVLFGSTGAGK 118
>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis,
nucleotide-binding, transferase, structural genomics;
1.80A {Thermus thermophilus}
Length = 186
Score = 27.1 bits (61), Expect = 7.0
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 161 ILLFGPPGTGK 171
++ GPPG GK
Sbjct: 7 VIFLGPPGAGK 17
>2xrn_A HTH-type transcriptional regulator TTGV; DNA-binding protein,
tetramer gene regulator, cooperative DN binding,
multidrug binding protein; 2.90A {Pseudomonas putida}
PDB: 2xro_A
Length = 241
Score = 27.1 bits (61), Expect = 7.0
Identities = 8/23 (34%), Positives = 14/23 (60%), Gaps = 2/23 (8%)
Query: 295 TRNTISDENL-KELAK-RTEGYS 315
T NT+ + L K+L++ R G +
Sbjct: 160 TSNTLGRKALVKQLSEVRQSGVA 182
>3aek_B Light-independent protochlorophyllide reductase S; iron/sulfur
cluster, oxidoreductase, bacteriochlorophyll
biosynthesis; HET: PMR; 2.30A {Rhodobacter capsulatus}
PDB: 3aeq_B* 3aer_B 3aes_B* 3aeu_B 3aet_B
Length = 525
Score = 27.5 bits (61), Expect = 7.3
Identities = 5/40 (12%), Positives = 15/40 (37%), Gaps = 3/40 (7%)
Query: 185 STFFSVSSSDLVSKWLGESEKLVKTLFELARAHRPSIIFI 224
+F + +S + + + L L ++P + +
Sbjct: 55 VSFSTFEASHMGT---DTAILLKDALAAAHARYKPQAMAV 91
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 27.2 bits (60), Expect = 9.3
Identities = 13/76 (17%), Positives = 27/76 (35%), Gaps = 13/76 (17%)
Query: 162 LLFGPPGTGKSYLAKAVATEANNSTFFSV-------SSSDLVSKWLGESEKLVKTLFELA 214
L+ GPPGTGK+ + + + + + D + + KL ++
Sbjct: 379 LIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHL------AAKLRDLGLKVV 432
Query: 215 RAHRPSIIFIDERIDR 230
R S ++ +
Sbjct: 433 RLTAKSREDVESSVSN 448
>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
Length = 201
Score = 26.8 bits (60), Expect = 9.6
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 161 ILLFGPPGTGK 171
+LL GPPG GK
Sbjct: 23 VLLLGPPGAGK 33
>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides,
nucleotides, transferase; HET: 5GP; 1.85A {Coxiella
burnetii}
Length = 205
Score = 26.7 bits (60), Expect = 9.6
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 159 KGIL--LFGPPGTGKSYLAKAVATEANNSTFFSVS 191
K L + P G GK+ L +A+ +A S+S
Sbjct: 6 KANLFIISAPSGAGKTSLVRAL-VKALAEIKISIS 39
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.315 0.133 0.377
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,121,663
Number of extensions: 321955
Number of successful extensions: 1716
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1611
Number of HSP's successfully gapped: 267
Length of query: 330
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 236
Effective length of database: 4,077,219
Effective search space: 962223684
Effective search space used: 962223684
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (25.6 bits)