RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 014450
(424 letters)
>1jal_A YCHF protein; nucleotide-binding fold, structural genomics,
structure 2 function project, S2F, unknown function;
2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2
Length = 363
Score = 672 bits (1737), Expect = 0.0
Identities = 196/371 (52%), Positives = 262/371 (70%), Gaps = 9/371 (2%)
Query: 55 MSLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSGLSK 114
M + GIVGLPNVGKSTLFNA+ + G +AAN+PFCTIEPN G+V +PDPRL L+ + K
Sbjct: 1 MGFKCGIVGLPNVGKSTLFNALTKAG-IEAANYPFCTIEPNTGVVPMPDPRLDALAEIVK 59
Query: 115 SQKAVPASVEFVDIAGLVKGASQGEGLGNKFLSHIREVDSILQVVRCFEDNDIVHVNGKV 174
++ +P ++EFVDIAGLV GAS+GEGLGNKFL++IRE D+I VVRCFE++DIVHV GK+
Sbjct: 60 PERILPTTMEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKI 119
Query: 175 DPKSDVDVINLELVFSDLDQIEKRMEKL-KKGKAKDSQSKLKEDAEKAALEKIQQALMDG 233
DP D+D IN EL +DLD E+ +++L K+ K D ++K E + +EKI L +
Sbjct: 120 DPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAK----FELSVMEKILPVLENA 175
Query: 234 KPARSVTLNDFERDSIKQLCLLTMKPIIYVANVAESDLADPGSNPHVNEVMNLASDLQSG 293
RSV L+ E +IK LT+KP +Y+ANV E + NP+++ V +A+ +
Sbjct: 176 GMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFEN---NPYLDRVREIAAKEGAV 232
Query: 294 RVTISAQVEAELTELPSEERVEYLASLGVSESGLGNLIRSTYSLLGLRTYFTSGEKETKA 353
V + A +E+E+ EL EE+VE+L LG+ E GL +IR+ Y+LL L+TYFT+G KE +A
Sbjct: 233 VVPVCAAIESEIAELDDEEKVEFLQDLGIEEPGLNRVIRAGYALLNLQTYFTAGVKEVRA 292
Query: 354 WTIRAGMTAPQAAGVIHSDFEKGFIRAETVAYDDFVAAGSLAAAREKGLLRSEGKDYIVQ 413
WT+ G TAP+AA VIH+DFEKGFIRAE +AY+DF+ A+E G R EGKDYIVQ
Sbjct: 293 WTVSVGATAPKAAAVIHTDFEKGFIRAEVIAYEDFIQFNGENGAKEAGKWRLEGKDYIVQ 352
Query: 414 EGDVMLFRFNV 424
+GDVM FRFNV
Sbjct: 353 DGDVMHFRFNV 363
>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio
project on protein structural and functional analyses;
HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A
Length = 368
Score = 661 bits (1707), Expect = 0.0
Identities = 190/371 (51%), Positives = 243/371 (65%), Gaps = 9/371 (2%)
Query: 57 LRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSGLSKSQ 116
L GIVGLPNVGKSTLFNA+ A AAN+PF TI+ NVG+V + D RL+ L
Sbjct: 2 LAVGIVGLPNVGKSTLFNALTRAN-ALAANYPFATIDKNVGVVPLEDERLYALQRTFAKG 60
Query: 117 KA----VPASVEFVDIAGLVKGASQGEGLGNKFLSHIREVDSILQVVRCFEDNDIVHVNG 172
+ VP VEFVDIAGLVKGA +GEGLGN+FL+HIREV +I V+RCF D D+VHV G
Sbjct: 61 ERVPPVVPTHVEFVDIAGLVKGAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMG 120
Query: 173 KVDPKSDVDVINLELVFSDLDQIEKRMEKLKKGKAKDSQSKLKEDAEKAALEKIQQALMD 232
+VDP D +V+ EL+ +DL +E+R+E+L+K D + A E + L +
Sbjct: 121 RVDPLEDAEVVETELLLADLATLERRLERLRKEARADRERL----PLLEAAEGLYVHLQE 176
Query: 233 GKPARSVTLNDFERDSIKQLCLLTMKPIIYVANVAESDLADPGSNPHVNEVMNLASDLQS 292
GKPAR+ ++ +K+ LLT KP+IYVANVAE DL D NP V V A + +
Sbjct: 177 GKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGA 236
Query: 293 GRVTISAQVEAELTELPSEERVEYLASLGVSESGLGNLIRSTYSLLGLRTYFTSGEKETK 352
V +SA++EAEL EL EE E LA+ G+ ESGL L R+ Y L L T+FT+GEKE +
Sbjct: 237 EVVVVSARLEAELAELSGEEARELLAAYGLQESGLQRLARAGYRALDLLTFFTAGEKEVR 296
Query: 353 AWTIRAGMTAPQAAGVIHSDFEKGFIRAETVAYDDFVAAGSLAAAREKGLLRSEGKDYIV 412
AWT+R G AP+AAG IHSD E+GFIRAE + +D V AG A A+E+G +R EGKDY V
Sbjct: 297 AWTVRRGTKAPRAAGEIHSDMERGFIRAEVIPWDKLVEAGGWARAKERGWVRLEGKDYEV 356
Query: 413 QEGDVMLFRFN 423
Q+GDV+ FN
Sbjct: 357 QDGDVIYVLFN 367
>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics,
GTP1OBG, PSI, protein structure initiative; 2.80A
{Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2
Length = 392
Score = 649 bits (1677), Expect = 0.0
Identities = 151/377 (40%), Positives = 216/377 (57%), Gaps = 7/377 (1%)
Query: 52 KISMSLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSG 111
+ +L+ GIVG+PNVGKST F A+ ++ AN+P+ TI+P VAVPD R L
Sbjct: 16 RPGNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCE 75
Query: 112 LSKSQKAVPASVEFVDIAGLVKGASQGEGLGNKFLSHIREVDSILQVVRCFEDNDIVHVN 171
K + VPA + DIAGL KGAS G GLGN FLSH+R VD+I QVVR F+D +I+HV
Sbjct: 76 AYKPKSRVPAFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFDDAEIIHVE 135
Query: 172 GKVDPKSDVDVINLELVFSDLDQIEKRMEKLKKG-KAKDSQSKLKED-AEKAALEKIQQA 229
G VDP D+ +I EL+ D + +EK +E L+K + ++K E+A +EK+ Q
Sbjct: 136 GDVDPIRDLSIIVDELLIKDAEFVEKHLEGLRKITSRGANTLEMKAKKEEQAIIEKVYQY 195
Query: 230 LMDGK-PARSVTLNDFERDSIKQLCLLTMKPIIYVANVAESDLADPGSNPHVNEVMNLAS 288
L + K P R ++ E + I L LLT KP+IY+ N++E D N ++ ++
Sbjct: 196 LTETKQPIRKGDWSNREVEIINSLYLLTAKPVIYLVNMSERDFLRQK-NKYLPKIKKWID 254
Query: 289 DLQSGR--VTISAQVEAELTELPSEERVEYLASLGVSESGLGNLIRSTYSLLGLRTYFTS 346
+ G + +S E LT EE +E L +S L +I + Y+ L L YFT
Sbjct: 255 ENSPGDTLIPMSVAFEERLTNFTEEEAIEECKKLNT-KSMLPKIIVTGYNALNLINYFTC 313
Query: 347 GEKETKAWTIRAGMTAPQAAGVIHSDFEKGFIRAETVAYDDFVAAGSLAAAREKGLLRSE 406
GE E ++WTIR G APQAAGVIH+DFEK F+ E + Y D + A R G ++
Sbjct: 314 GEDEVRSWTIRKGTKAPQAAGVIHTDFEKAFVVGEIMHYQDLFDYKTENACRAAGKYLTK 373
Query: 407 GKDYIVQEGDVMLFRFN 423
GK+Y+++ GD+ ++
Sbjct: 374 GKEYVMESGDIAHWKAG 390
>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop,
OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}
Length = 396
Score = 635 bits (1640), Expect = 0.0
Identities = 161/377 (42%), Positives = 224/377 (59%), Gaps = 9/377 (2%)
Query: 52 KISMSLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSG 111
+ SL+ GIVGLPNVGKST FN + N +A A NFPFCTI+PN V VPD R L
Sbjct: 18 RFGTSLKIGIVGLPNVGKSTFFNVLT-NSQASAENFPFCTIDPNESRVPVPDERFDFLCQ 76
Query: 112 LSKSQKAVPASVEFVDIAGLVKGASQGEGLGNKFLSHIREVDSILQVVRCFEDNDIVHVN 171
K +PA + VDIAGLVKGA G+GLGN FLSHI D I + R FED+DI HV
Sbjct: 77 YHKPASKIPAFLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFEDDDITHVE 136
Query: 172 GKVDPKSDVDVINLELVFSDLDQIEKRMEKLKKGKAKDSQSKLKEDAEKAALEKIQQALM 231
G VDP D+++I+ EL D + I ++KL+K + KLK E + K++ ++
Sbjct: 137 GSVDPIRDIEIIHEELQLKDEEMIGPIIDKLEKVAVRGGDKKLK--PEYDIMCKVKSWVI 194
Query: 232 D-GKPARSV-TLNDFERDSIKQLCLLTMKPIIYVANVAESDLADPGSNPHVNEVMNLASD 289
D KP R ND E + + + LT KP++Y+ N++E D N + ++
Sbjct: 195 DQKKPVRFYHDWNDKEIEVLNKHLFLTSKPMVYLVNLSEKDYIRKK-NKWLIKIKEWVDK 253
Query: 290 LQSGR--VTISAQVEAELTELPSEERVEYLASLGVSESGLGNLIRSTYSLLGLRTYFTSG 347
G + S +E +L EL +EER +YL +++S L +I++ ++ L L +FT+G
Sbjct: 254 YDPGALVIPFSGALELKLQELSAEERQKYL-EANMTQSALPKIIKAGFAALQLEYFFTAG 312
Query: 348 EKETKAWTIRAGMTAPQAAGVIHSDFEKGFIRAETVAYDDFVAAGSLAAAREKGLLRSEG 407
E +AWTIR G APQAAG IH+DFEKGFI AE + Y+DF GS A + G R +G
Sbjct: 313 PDEVRAWTIRKGTKAPQAAGKIHTDFEKGFIMAEVMKYEDFKEEGSENAVKAAGKYRQQG 372
Query: 408 KDYIVQEGDVMLFRFNV 424
++YIV++GD++ F+FN
Sbjct: 373 RNYIVEDGDIIFFKFNT 389
>1wxq_A GTP-binding protein; structural genomics, riken structural
genomics/proteomics initiative, RSGI, NPPSFA; 2.60A
{Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2
Length = 397
Score = 447 bits (1151), Expect = e-156
Identities = 98/416 (23%), Positives = 152/416 (36%), Gaps = 76/416 (18%)
Query: 57 LRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIV-AVPDPRLHVLSGLSKS 115
+ G+VG PNVGKST F+A + AN+PF TIE NVG+ A+ D L
Sbjct: 1 MEIGVVGKPNVGKSTFFSAATLVD-VEIANYPFTTIEANVGVTYAITDHPCKELGCSPNP 59
Query: 116 QKA------VPASVEFVDIAGLVKGASQGEGLGNKFLSHIREVDSILQVVRCFEDNDI-V 168
Q V+ VD+AGLV GA +G GLGNKFL +R +++ VV D
Sbjct: 60 QNYEYRNGLALIPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATGKTDPEG 119
Query: 169 HVNGKVDPKSDVDVINLELVFSDLDQIEKRMEKLKKGKAKDSQSKLKED------AEKAA 222
DP D++ + E+ + + K +K K + K + KL+
Sbjct: 120 QPTDYHDPVEDIEFLEREIDYWIYGILSKGWDKFAK-RIKLQKIKLESAIAEHLSGIGVN 178
Query: 223 LEKIQQALMD-GKPARSVTLNDFERDSIKQLCLLTMKPIIYVANVAESDLADPGSNPHVN 281
+ +A+ P + + + KP++ AN AD S+ +
Sbjct: 179 ENDVWEAMHKLNLPEDPTKWSQDDLLAFASEIRRVNKPMVIAANK-----ADAASDEQIK 233
Query: 282 EVMNLASDLQSGRVTISAQVEAELTELPSEERVEY------------------LASLGVS 323
++ + SA E L + +EY A + +
Sbjct: 234 RLVREEEKRGYIVIPTSAAAELTLRKAAKAGFIEYIPGASEFKVLRDMSEKQKRALMVIK 293
Query: 324 ESGL---------GNLIRSTYSLLGLRTYFT----------SGEKETKAWTIRAGMTAPQ 364
E L + R + LL L + G + ++ G T
Sbjct: 294 EKVLDRFGSTGVQEVINRVVFDLLKLIPVYPVHDENKLTDQFGNVLPHVFLMKKGSTPRD 353
Query: 365 AAGVIHSDFEKGFIRAETVAYDDFVAAGSLAAAREKGLLRSEGKDYIVQEGDVMLF 420
A +H+D KGF+ A AR K R G+DY +Q D++
Sbjct: 354 LAFKVHTDLGKGFLYAI--------------NARTK---RRVGEDYELQFNDIVKI 392
>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent
factor, stress response, sporulation, large G-protein,
structural genomics, PSI; HET: G4P; 2.60A {Bacillus
subtilis} SCOP: b.117.1.1 c.37.1.8
Length = 342
Score = 99.6 bits (249), Expect = 2e-23
Identities = 54/169 (31%), Positives = 80/169 (47%), Gaps = 44/169 (26%)
Query: 59 AGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSGLSKSQKA 118
G+VG P+VGKSTL +VV + K + A++ F T+ PN+G+V D R
Sbjct: 161 VGLVGFPSVGKSTLL-SVVSSAKPKIADYHFTTLVPNLGMVETDDGR------------- 206
Query: 119 VPASVEFV--DIAGLVKGASQGEGLGNKFLSHIREVDSILQVVRCFEDNDIVHVNGKVDP 176
FV D+ GL++GA QG GLG++FL HI I+ V+ D+ + G+ DP
Sbjct: 207 -----SFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVI------DMSGLEGR-DP 254
Query: 177 KSDVDVINLEL--------------VFS--DLDQIEKRMEKLKKGKAKD 209
D IN EL V + D+ + + +E K+ D
Sbjct: 255 YDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAENLEAFKEKLTDD 303
>1udx_A The GTP-binding protein OBG; TGS domain, riken structural
genomics/proteomics initiative, RSGI, structural
genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1
c.37.1.8 d.242.1.1
Length = 416
Score = 94.2 bits (235), Expect = 3e-21
Identities = 37/131 (28%), Positives = 62/131 (47%), Gaps = 34/131 (25%)
Query: 60 GIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSGLSKSQKAV 119
G+VG PN GKS+L A + + A +PF T+ PN+G+V V +
Sbjct: 161 GLVGYPNAGKSSLL-AAMTRAHPKIAPYPFTTLSPNLGVVEVSEEE-------------- 205
Query: 120 PASVEFV--DIAGLVKGASQGEGLGNKFLSHIREVDSILQVVRCFEDNDIVH-VNGKVDP 176
F DI G+++GAS+G+GLG +FL HI R +++ ++ +P
Sbjct: 206 ----RFTLADIPGIIEGASEGKGLGLEFLRHIA---------RT---RVLLYVLDAADEP 249
Query: 177 KSDVDVINLEL 187
++ + E+
Sbjct: 250 LKTLETLRKEV 260
>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria,
structural genomics, structural genomics consortium,
SGC, unknown function; HET: GDP; 2.01A {Plasmodium
falciparum}
Length = 228
Score = 69.8 bits (171), Expect = 6e-14
Identities = 29/168 (17%), Positives = 54/168 (32%), Gaps = 39/168 (23%)
Query: 60 GIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSGLSKSQKAV 119
+ G PNVGKS+ N V ++ F T VG + +
Sbjct: 33 ILSGAPNVGKSSFMNI-VSRANVDVQSYSFTTKNLYVGHFDHKLNKYQI----------- 80
Query: 120 PASVEFVDIAGLVKGASQGEGLGNK----FLSHIREVDSILQVVRCFEDN-----DIVHV 170
+D GL+ A + L+HI IL ++ E + +++
Sbjct: 81 ------IDTPGLLDRAFENRNTIEMTTITALAHIN--GVILFIIDISEQCGLTIKEQINL 132
Query: 171 NGKVDPK----------SDVDVINLELVFSDLDQIEKRMEKLKKGKAK 208
+ + +D N++ + D + K++ K K
Sbjct: 133 FYSIKSVFSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIK 180
>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 = 70.8 bits (173), Expect = 3e-13
Identities = 66/376 (17%), Positives = 114/376 (30%), Gaps = 129/376 (34%)
Query: 4 TAACNYLIPALTLLPKPME-----SSLFTRNANLIGVLGITTTSSRRRFSSASKISMSLR 58
+Y++ A L P E + L+ + I T S F + + ++++
Sbjct: 244 IQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV- 302
Query: 59 AGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNV-------GIVAVPDPRLHVLSG 111
LF V A +P ++ P++ VP P L + S
Sbjct: 303 -------------LFFIGVR---CYEA-YPNTSLPPSILEDSLENNE-GVPSPMLSI-SN 343
Query: 112 LSKSQKAVPASVEFVDIAGLVKGASQGEGLGNKFLSHIREVDSILQVVRCFEDNDIVH-- 169
L++ Q V+ ++ + +S L V
Sbjct: 344 LTQEQ------VQ----------------------DYVNKTNSHLP------AGKQVEIS 369
Query: 170 -VNGKVDPKSDVDVINLELVFS----DLDQIEKRMEKLKKGKAKDSQSKLKEDAEKAALE 224
VNG K+ LV S L + + K K D QS++ K
Sbjct: 370 LVNG---AKN--------LVVSGPPQSLYGLNLTLRKAKAPSGLD-QSRIPFSERKL--- 414
Query: 225 KIQQ-----------ALMDGKPARSVTLNDFERDSIKQLCLLTMKPIIYVANVAESDLAD 273
K L+ PA + D ++++ D+
Sbjct: 415 KFSNRFLPVASPFHSHLL--VPASDLINKDLVKNNVS---------------FNAKDIQI 457
Query: 274 PGSNPHVNEVMNLASDLQSGRVTISAQVEAELTELPS--EERVEYLAS----LGVSE-SG 326
P V + + SDL+ +IS ++ + LP E ++ A+ G SG
Sbjct: 458 P-----VYDTFD-GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASG 511
Query: 327 LGNLIRSTYSLLGLRT 342
LG L G+R
Sbjct: 512 LGVLTHRNKDGTGVRV 527
Score = 54.3 bits (130), Expect = 6e-08
Identities = 59/328 (17%), Positives = 110/328 (33%), Gaps = 94/328 (28%)
Query: 101 VPDPRLHVL-SGLSKS-QKAVPASVEFVDIAGLVKGASQGEGLGNKFLSHI-REVD---- 153
VP + S L + K +P E A + + E L KFL ++ V+
Sbjct: 22 VP-TASFFIASQLQEQFNKILPEPTE--GFAADDEPTTPAE-LVGKFLGYVSSLVEPSKV 77
Query: 154 ----SILQ-VVRCFED-----NDIVH-VNGKVDPKSDVDVINLELVFSDLDQIEKRMEKL 202
+L + FE+ NDI H + K+ ++D ++ + + + I R+
Sbjct: 78 GQFDQVLNLCLTEFENCYLEGNDI-HALAAKLLQENDTTLVKTKELIKNY--ITARIM-A 133
Query: 203 KKGKAKDSQSKLKEDAEKAALEKIQQALMDGKPARSVTLNDF-----ERDSIKQLCLL-- 255
K+ K S S L +G A+ V + F D ++L L
Sbjct: 134 KRPFDKKSNSALFRAVG------------EGN-AQLVAI--FGGQGNTDDYFEELRDLYQ 178
Query: 256 TMKPII--YVANVAE--SDLA--DPGSNPHVNEVMNLASDLQSGRVTISAQVEAELTELP 309
T ++ + AE S+L + + +N+ L+ T P
Sbjct: 179 TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE----------NPSNT--P 226
Query: 310 SEERVEYLASLGVSESGLGNLIRSTYSLLGLRTYFTSGEKETKAWTIRAGMTAPQAAGVI 369
++ YL S+ +S LI ++ L Y + + G
Sbjct: 227 DKD---YLLSIPIS----CPLI----GVIQLAHY----------------VVTAKLLGFT 259
Query: 370 HSDFEKGFIRAETVAYDDFVAAGSLAAA 397
+ + +++ T V A ++A
Sbjct: 260 PGEL-RSYLKGATGHSQGLVTAVAIAET 286
Score = 39.6 bits (92), Expect = 0.002
Identities = 34/201 (16%), Positives = 68/201 (33%), Gaps = 65/201 (32%)
Query: 53 ISMS----LRA-GIVGLPNV--GKSTL--FNAVVENGKAQAANFPFCTIEPNVGIVAVPD 103
+ + L++ G++ G S L + A+ + A E V +V
Sbjct: 1739 MEKAAFEDLKSKGLIPADATFAGHS-LGEYAALA----SLADVMSI---ESLVEVVFY-- 1788
Query: 104 PRLHVLSGLSKSQKAVPASVEFVDIAGL--VKGASQGEGLGNKFLSHI-----REVDSIL 156
R G++ Q AVP G+ + + L ++ + ++
Sbjct: 1789 -R-----GMT-MQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLV 1841
Query: 157 QVVRCFEDND------IVHVNGKVDPKSDVDVINLELVFSDLDQIEKRMEKLKKGKAKDS 210
++V N V G D+ L+ V + L+ I KL+K
Sbjct: 1842 EIV-----NYNVENQQYV-AAG--------DLRALDTVTNVLNFI-----KLQKIDI--- 1879
Query: 211 QSKLKEDAEKAALEKIQQALM 231
+L+ + +LE+++ L
Sbjct: 1880 -IELQ---KSLSLEEVEGHLF 1896
Score = 38.5 bits (89), Expect = 0.004
Identities = 54/296 (18%), Positives = 89/296 (30%), Gaps = 95/296 (32%)
Query: 136 SQGEGLG----NKFLSHIREV----D---------SILQVVRCFEDNDIVHVNGKVDPKS 178
SQ +G+G ++V D SIL +V N +H G+ +
Sbjct: 1626 SQEQGMGMDLYKTS-KAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR- 1683
Query: 179 DVDVIN---LELVFSDLDQIEKRMEKLKKGKAKDSQSKLKEDAEKAALEK--IQQ-ALMD 232
I ++F + + + EK+ K + + +EK L Q AL
Sbjct: 1684 ----IRENYSAMIFETIVDGKLKTEKIFKE-INEHSTSYTFRSEKGLLSATQFTQPALT- 1737
Query: 233 GKPARSVTLNDFERDSIKQLCLLTMKPII-------YVANVAESDLADPGSNPHVNEVMN 285
FE +K L+ Y A + +D VM+
Sbjct: 1738 ---LMEKAA--FED--LKSKGLIPADATFAGHSLGEYAALASLAD------------VMS 1778
Query: 286 LASDLQSGRVTISAQVEAELTELPSEERVEYLASLGVSESGLGNLIRSTYSLLGLRTYFT 345
+ L E+ R + V LG RS Y ++ +
Sbjct: 1779 I-ESL------------VEVVFY----RGMTMQVA-VPRDELG---RSNYGMIAIN---- 1813
Query: 346 SGEKETKAWTIRAGMTAPQAAGVIHS-DFEKGFIRAETVAYDD----FVAAGSLAA 396
+ A + V+ G++ E V Y+ +VAAG L A
Sbjct: 1814 -------PGRVAASFSQEALQYVVERVGKRTGWL-VEIVNYNVENQQYVAAGDLRA 1861
Score = 33.9 bits (77), Expect = 0.11
Identities = 42/234 (17%), Positives = 69/234 (29%), Gaps = 74/234 (31%)
Query: 236 ARSVTLNDFERDSIKQL---------CLLTMKPIIYVANVAESDLADPGSN---PHVNEV 283
A + + F K + C P + D + P
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYEAY-PNTSLPPSILEDSLENNEGVPSP----- 337
Query: 284 MNLA-SDLQSGRVTISAQVEAELTELPSEERVEYLASL----------GVSES--GLGNL 330
M L+ S+L + + V + LP+ ++VE SL G +S GL
Sbjct: 338 M-LSISNLT--QEQVQDYVNKTNSHLPAGKQVE--ISLVNGAKNLVVSGPPQSLYGLNLT 392
Query: 331 IRSTYSLLGL---RTYFTSGEKETKAWTIRAGM-----TAPQAAGVIHSDFEKGFIRAET 382
+R + GL R F S K ++ +P HS A
Sbjct: 393 LRKAKAPSGLDQSRIPF-SERK------LKFSNRFLPVASP-----FHSHLLVP---ASD 437
Query: 383 VAYDDFVAAGSLAAAREKGLLR------SEGKDYIVQEGDV------MLFRFNV 424
+ D V A++ ++ +G D V G + + R V
Sbjct: 438 LINKDLVKNNVSFNAKD---IQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPV 488
Score = 32.3 bits (73), Expect = 0.33
Identities = 31/187 (16%), Positives = 54/187 (28%), Gaps = 81/187 (43%)
Query: 78 ENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSGLSKSQKAVPASVEFVDIAGLVKGASQ 137
+ Q A +E A L KS+ +PA F AG S
Sbjct: 1730 QF--TQPALT---LME-----KAA----FEDL----KSKGLIPADATF---AGH----SL 1764
Query: 138 GEGLGNKF--LSHIREVDSILQVVRCFEDN-DIVHVNGK--------------------V 174
GE + L+ + +V S E ++V G +
Sbjct: 1765 GE-----YAALASLADVMS-------IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAI 1812
Query: 175 DPKSDVDVINLELVFSDLDQIEKRMEKLKKGK--------AKDSQ---SKLKEDAEKAAL 223
+P + E L + +R+ K + G ++ Q + + AL
Sbjct: 1813 NPGRVAASFSQE----ALQYVVERVGK-RTGWLVEIVNYNVENQQYVAA-----GDLRAL 1862
Query: 224 EKIQQAL 230
+ + L
Sbjct: 1863 DTVTNVL 1869
>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 = 60.6 bits (146), Expect = 6e-10
Identities = 70/513 (13%), Positives = 142/513 (27%), Gaps = 140/513 (27%)
Query: 8 NY--LIPALTLLPK----PMESSLFTRNANLIGVLGITTTSSRRRFSSASKIS---MSLR 58
NY L+ + + + R+ L + + R K+ + LR
Sbjct: 90 NYKFLMSPIKTEQRQPSMMTRMYIEQRD-RLYNDNQVFAKYNVSRLQPYLKLRQALLELR 148
Query: 59 --AGIV--GLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSGLSK 114
++ G+ GK+ + V + K Q F N+ P+ L +L L
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQ-CKMDFKIFWLNLKNCNSPETVLEMLQKL-- 205
Query: 115 SQKAVPASVEFVDIAGLVK-GASQGEGLGNKFLSHIREVDSILQVVRCFEDNDIVHVNGK 173
+ P D + +K + + L + +L V+ ++ +
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL-VLLNVQNAKAWNA--- 261
Query: 174 VDPKS-------DVDVINLELVFSDLDQIEKRMEKLKKGKAKD------------SQSKL 214
+ V + S ++ D L
Sbjct: 262 FNLSCKILLTTRFKQVTD---FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
Query: 215 KEDAEKA---ALEKIQQALMDGKPARSVTLNDFERDSIK---QLCLLTMKPI-------- 260
+ L I +++ DG A D + + L ++P
Sbjct: 319 PREVLTTNPRRLSIIAESIRDG-LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR 377
Query: 261 --IYVANV-----------AESDLADPGSNPHVNEVMN---LASDLQSGRVTI------- 297
++ + + +D VN++ + + ++I
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVMVV--VNKLHKYSLVEKQPKESTISIPSIYLEL 435
Query: 298 ------SAQVEAELTE-------------LPSEERVEYLAS-LG-----VSESGLGNLIR 332
+ + + +P +Y S +G + L R
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD-QYFYSHIGHHLKNIEHPERMTLFR 494
Query: 333 STYSLLGLRTYFTSGEKETKAWTIRAGMTAPQAAGVIHS---DFE--KGFIRAETVAYD- 386
+ L R F E K IR TA A+G I + + K +I Y+
Sbjct: 495 MVF--LDFR--FL----EQK---IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
Query: 387 ------DFVAAGSLAAAREKGLLRSEGKDYIVQ 413
DF+ E+ L+ S+ D +++
Sbjct: 544 LVNAILDFL------PKIEENLICSKYTD-LLR 569
Score = 43.7 bits (102), Expect = 1e-04
Identities = 51/320 (15%), Positives = 106/320 (33%), Gaps = 83/320 (25%)
Query: 112 LSKSQKAVPASVEFVDIAGLVKGASQGEGLGNKFLSHI-REVDSILQVVRCFEDNDIVHV 170
LS + A + + D+ + K L + + HI D++ +R F +
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPKSI-----LSKEEIDHIIMSKDAVSGTLRLF---WTLLS 73
Query: 171 NGK------VDPKSDVDVINLELVFSDLDQIEKRMEKLKKGKAKDSQSKLKEDAEKAA-- 222
+ V+ +V IN + + S + + E+R + + + +L D + A
Sbjct: 74 KQEEMVQKFVE---EVLRINYKFLMSPI-KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY 129
Query: 223 -------LEKIQQALMDGKPARSVTL------------NDFERDSIKQLCLLTMKPIIYV 263
K++QAL++ +PA++V + D K C + K I+
Sbjct: 130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFK--IFW 186
Query: 264 ANVAESDLADPGSNPHVNEVMNLASDLQSGRVTISAQVEAELTELPSEERVEYLASLGVS 323
N+ + + V+ + LQ + Q++ T L +
Sbjct: 187 LNLKNCNSPE--------TVLEM---LQ----KLLYQIDPNWTSRSDHSSNIKL-RIHSI 230
Query: 324 ESGLGNLIRST-Y--SLLGL----------------RTYFTSGEKETKAWTIRAGMTAPQ 364
++ L L++S Y LL L + T+ K+ + ++A
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ-----VTDFLSAAT 285
Query: 365 AAGVIHSDFEKGFIRAETVA 384
+ E +
Sbjct: 286 TTHISLDHHSMTLTPDEVKS 305
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 52.5 bits (126), Expect = 1e-07
Identities = 26/103 (25%), Positives = 37/103 (35%), Gaps = 20/103 (19%)
Query: 59 AGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSGLSKSQKA 118
I G PNVGKSTL A + K + A++PF T NVG R +
Sbjct: 170 VVIAGHPNVGKSTLLKA-LTTAKPEIASYPFTTRGINVGQFEDGYFRYQI---------- 218
Query: 119 VPASVEFVDIAGLVKGASQGEGLGNK--FLSHIREVDSILQVV 159
+D GL+ K L+ + I+ +
Sbjct: 219 -------IDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIF 254
>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP,
signaling protein; HET: GNP; 2.00A {Thermotoga maritima}
PDB: 3cnn_A* 3cno_A*
Length = 262
Score = 47.6 bits (114), Expect = 2e-06
Identities = 14/54 (25%), Positives = 20/54 (37%)
Query: 35 VLGITTTSSRRRFSSASKISMSLRAGIVGLPNVGKSTLFNAVVENGKAQAANFP 88
V+ R+ R IVG+PN GKST+ N + + P
Sbjct: 78 VITTHKGEPRKVLLKKLSFDRLARVLIVGVPNTGKSTIINKLKGKRASSVGAQP 131
>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics,
nysgxrc T18, GTPase, PSI, protein structure initiative;
HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8
Length = 282
Score = 46.1 bits (110), Expect = 9e-06
Identities = 16/44 (36%), Positives = 25/44 (56%)
Query: 45 RRFSSASKISMSLRAGIVGLPNVGKSTLFNAVVENGKAQAANFP 88
R + ++RA I+G+PNVGKSTL N + + A+ + P
Sbjct: 109 DRMRAKGVKPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRP 152
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 43.9 bits (104), Expect = 7e-05
Identities = 32/159 (20%), Positives = 54/159 (33%), Gaps = 36/159 (22%)
Query: 54 SMSLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVA-VP----DPRLHV 108
+ G NVGKS+ NA+V G+ NV IV+ DP
Sbjct: 32 GFRRYIVVAGRRNVGKSSFMNALV--GQ-------------NVSIVSDYAGTTTDPVYKS 76
Query: 109 LSGLSKSQKAVPASVEFVDIAGLVKGASQGEGLGNKFLSHIREVDSILQVVRCFE---DN 165
+ V VD GL G K D + V ++
Sbjct: 77 MELHPIGP------VTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYED 130
Query: 166 DIVHVNGKVDPKSDVDVINLELVFSDLDQIEKRMEKLKK 204
D+V + + ++ + +V + +D + ++ E+LK
Sbjct: 131 DVV----NLFKEMEIPFV---VVVNKIDVLGEKAEELKG 162
>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural
genomics; HET: GDP; 1.96A {Thermus thermophilus}
Length = 161
Score = 40.9 bits (97), Expect = 2e-04
Identities = 15/26 (57%), Positives = 17/26 (65%), Gaps = 7/26 (26%)
Query: 61 IVGLPNVGKSTLFN-------AVVEN 79
IVG PNVGKS+LFN AVV +
Sbjct: 6 IVGRPNVGKSSLFNRLLKKRSAVVAD 31
>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem
G-domains, ligand binding protein; HET: GDP; 1.90A
{Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1
Length = 439
Score = 41.3 bits (98), Expect = 4e-04
Identities = 16/26 (61%), Positives = 18/26 (69%), Gaps = 7/26 (26%)
Query: 61 IVGLPNVGKSTLFN-------AVVEN 79
IVG PNVGKSTLFN A+VE+
Sbjct: 6 IVGRPNVGKSTLFNKLVKKKKAIVED 31
Score = 36.3 bits (85), Expect = 0.014
Identities = 14/21 (66%), Positives = 18/21 (85%)
Query: 57 LRAGIVGLPNVGKSTLFNAVV 77
++ IVG PNVGKSTLFNA++
Sbjct: 181 IKVAIVGRPNVGKSTLFNAIL 201
>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET:
GDP; 2.50A {Bacillus subtilis}
Length = 436
Score = 41.3 bits (98), Expect = 5e-04
Identities = 14/26 (53%), Positives = 18/26 (69%), Gaps = 7/26 (26%)
Query: 61 IVGLPNVGKSTLFN-------AVVEN 79
IVG PNVGKST+FN ++VE+
Sbjct: 8 IVGRPNVGKSTIFNRIAGERISIVED 33
Score = 35.9 bits (84), Expect = 0.023
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 57 LRAGIVGLPNVGKSTLFNA 75
++ ++G PNVGKS+L NA
Sbjct: 176 IQFCLIGRPNVGKSSLVNA 194
>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 = 39.5 bits (91), Expect = 5e-04
Identities = 12/61 (19%), Positives = 19/61 (31%), Gaps = 34/61 (55%)
Query: 245 ERDSIKQLCLLTMKPIIYVANVAESDL---ADPGSNPHVNEVMNLASDLQSGRVTISAQV 301
E+ ++K+L ++ L A S P LA I A +
Sbjct: 18 EKQALKKL---------------QASLKLYA-DDSAP------ALA---------IKATM 46
Query: 302 E 302
E
Sbjct: 47 E 47
Score = 36.1 bits (82), Expect = 0.008
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 4/25 (16%)
Query: 219 EKAALEKIQQALM----DGKPARSV 239
EK AL+K+Q +L D PA ++
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAI 42
Score = 30.7 bits (68), Expect = 0.48
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 15/37 (40%)
Query: 196 EKRMEKLKKGKAKDSQSKLK---ED-----AEKAALE 224
EK + LKK Q+ LK +D A KA +E
Sbjct: 18 EK--QALKK-----LQASLKLYADDSAPALAIKATME 47
Score = 29.1 bits (64), Expect = 1.5
Identities = 7/35 (20%), Positives = 15/35 (42%), Gaps = 14/35 (40%)
Query: 92 IEPNVGIVAVPD--PRLHVLSGLSKSQKAVPASVE 124
++ ++ + A D P L A+ A++E
Sbjct: 25 LQASLKLYA-DDSAPAL-----------AIKATME 47
>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO,
cell inner membrane, cell ME GTP-binding, ION transport,
membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A*
3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*
Length = 274
Score = 40.8 bits (96), Expect = 5e-04
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 56 SLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHV 108
L G++G PN GK+TLFN + + + N+ T+E G + D ++ +
Sbjct: 3 KLTIGLIGNPNSGKTTLFNQLT-GSRQRVGNWAGVTVERKEGQFSTTDHQVTL 54
>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase,
G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima}
PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A
Length = 258
Score = 40.3 bits (95), Expect = 5e-04
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 57 LRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHV 108
++ + G PNVGK++LFNA+ K AN+P T+E G+ +++
Sbjct: 6 VKVALAGCPNVGKTSLFNALT-GTKQYVANWPGVTVEKKEGVFTYKGYTINL 56
>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle,
G-protein, prokaryote, GTP-BIND nucleotide-binding,
metal transport; 2.70A {Pyrococcus furiosus}
Length = 271
Score = 40.4 bits (95), Expect = 6e-04
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 55 MSLRA-GIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHV 108
M L+ +VG PNVGK+T+FNA+ + N+P T+E GI+ + V
Sbjct: 1 MVLKTVALVGNPNVGKTTIFNALT-GLRQHVGNWPGVTVEKKEGIMEYREKEFLV 54
>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote
initiative, RSGI, structural genomics, hydrolase; HET:
GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8
d.52.3.1
Length = 301
Score = 40.1 bits (95), Expect = 7e-04
Identities = 13/23 (56%), Positives = 16/23 (69%), Gaps = 3/23 (13%)
Query: 58 RAG---IVGLPNVGKSTLFNAVV 77
+G IVG PNVGKSTL N ++
Sbjct: 6 YSGFVAIVGKPNVGKSTLLNNLL 28
>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S
rRNA, 30S ribosome ASSE GTP-binding,
nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus}
PDB: 3r9w_A* 3r9x_A*
Length = 308
Score = 40.2 bits (95), Expect = 7e-04
Identities = 13/23 (56%), Positives = 16/23 (69%), Gaps = 3/23 (13%)
Query: 58 RAG---IVGLPNVGKSTLFNAVV 77
+ G IVG PNVGKSTL N ++
Sbjct: 9 KVGYVAIVGKPNVGKSTLLNNLL 31
>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA,
national P protein structural and functional analyses;
HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8
Length = 190
Score = 39.6 bits (93), Expect = 7e-04
Identities = 23/171 (13%), Positives = 46/171 (26%), Gaps = 44/171 (25%)
Query: 61 IVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVLSGLSKSQKAVP 120
G NVGKSTL + K + P T +
Sbjct: 6 FAGRSNVGKSTLIYRLT-GKKVRRGKRPGVTRKIIEIEW--------------------- 43
Query: 121 ASVEFVDIAGLVKGASQGEGLGNKFLSHIR--------EVDSILQVVRCFEDNDIVHVNG 172
+ + +D+ G + + + I +D + VV D
Sbjct: 44 KNHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVV------DGKAAPE 97
Query: 173 KVDPKSDVDVINL-ELVFSDLDQIEKR-------MEKLKKGKAKDSQSKLK 215
+ I + + L +++ ++K+K + + K
Sbjct: 98 IIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNVQEVINFLAEK 148
>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling
protein; HET: GDP; 2.36A {Geobacillus
stearothermophilus}
Length = 369
Score = 40.3 bits (94), Expect = 8e-04
Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 9/68 (13%)
Query: 33 IGVLGITTTSSRRRF------SSASKISMSLRAGIVGLPNVGKSTLFNAVVENGKAQAAN 86
+ + + S+ + + ++ +VG NVGKST N ++ +
Sbjct: 133 LCPVDVCLVSAAKGIGMAKVMEAINRYREGGDVYVVGCTNVGKSTFINRII---EEATGK 189
Query: 87 FPFCTIEP 94
T
Sbjct: 190 GNVITTSY 197
>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like,
hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8
d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X
Length = 301
Score = 39.7 bits (94), Expect = 0.001
Identities = 13/23 (56%), Positives = 15/23 (65%), Gaps = 3/23 (13%)
Query: 58 RAG---IVGLPNVGKSTLFNAVV 77
G IVG PNVGKSTL N ++
Sbjct: 7 YCGFIAIVGRPNVGKSTLLNKLL 29
>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane
G-proteins, cell membrane, ION transport, transmembrane;
HET: GDP; 2.20A {Methanocaldococcus jannaschii}
Length = 188
Score = 39.1 bits (92), Expect = 0.001
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 56 SLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHV 108
S ++G PNVGKST+FNA+ N+P T+E G + V
Sbjct: 7 SYEIALIGNPNVGKSTIFNALT-GENVYIGNWPGVTVEKKEGEFEYNGEKFKV 58
>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell
membrane, ION transport, transmembrane; HET: GNP; 1.90A
{Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*
Length = 165
Score = 38.6 bits (91), Expect = 0.001
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 56 SLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHV 108
S ++G PNVGKST+FNA+ N+P T+E G + V
Sbjct: 3 SYEIALIGNPNVGKSTIFNALT-GENVYIGNWPGVTVEKKEGEFEYNGEKFKV 54
>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake,
cell inner membrane, cell GTP-binding, ION transport,
membrane; 2.50A {Legionella pneumophila}
Length = 256
Score = 39.2 bits (92), Expect = 0.001
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 58 RAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHV 108
A ++G PN GK+TLFNA+ N + N+P T+E G + + + +
Sbjct: 3 HALLIGNPNCGKTTLFNALT-NANQRVGNWPGVTVEKKTGEFLLGEHLIEI 52
>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved
in replication initiation, csgid, IDP90222; HET: DGI;
1.80A {Bacillus anthracis str}
Length = 368
Score = 39.2 bits (91), Expect = 0.002
Identities = 11/60 (18%), Positives = 21/60 (35%), Gaps = 6/60 (10%)
Query: 33 IGVLGITTTSSRRRF------SSASKISMSLRAGIVGLPNVGKSTLFNAVVENGKAQAAN 86
+ + S+ + + +VG NVGKST N +++ + N
Sbjct: 131 LKPEDVFLISAAKGQGIAELADAIEYYRGGKDVYVVGCTNVGKSTFINRMIKEFSDETEN 190
>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer,
alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A
{Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A*
2gja_A* 1rfl_A
Length = 172
Score = 37.5 bits (88), Expect = 0.003
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 61 IVGLPNVGKSTLFNAVVENGKA 82
I G PN GKS+L NA+ A
Sbjct: 9 IAGRPNAGKSSLLNALAGREAA 30
>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron
transport, GTPase, transmembrane, potassium; HET: GGM;
1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A*
3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*
Length = 272
Score = 38.1 bits (89), Expect = 0.004
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 57 LRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIV 99
++G PN GK++LFN + + N+P T+E G+V
Sbjct: 4 TEIALIGNPNSGKTSLFNLIT-GHNQRVGNWPGVTVERKSGLV 45
>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding,
hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1
c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*
Length = 482
Score = 38.3 bits (90), Expect = 0.005
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 57 LRAG----IVGLPNVGKSTLFNAVVENGKA 82
L G IVG PNVGKSTL N ++ +A
Sbjct: 240 LNRGLRMVIVGKPNVGKSTLLNRLLNEDRA 269
>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP-
binding, hydrolase, magnesium, metal-binding,
nucleotide- binding, potassium; HET: GDP FON; 2.95A
{Chlorobium tepidum} PDB: 3gei_A*
Length = 476
Score = 37.9 bits (89), Expect = 0.005
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 57 LRAG----IVGLPNVGKSTLFNAVVENGKA 82
+ G I G PN GKSTL N ++ +A
Sbjct: 230 VSEGVSTVIAGKPNAGKSTLLNTLLGQERA 259
>3ce2_A Putative peptidase; structural genomics, unknown function, P
protein structure initiative; 2.60A {Chlamydophila
abortus}
Length = 618
Score = 38.1 bits (89), Expect = 0.006
Identities = 14/152 (9%), Positives = 48/152 (31%), Gaps = 25/152 (16%)
Query: 173 KVDPKSDVDVI---NLELVFSDLDQIEKRMEKLKK--GKAKDSQSKLKEDAEKAALEKIQ 227
+V P+S++ ++ ++ + + ++ + + + E +
Sbjct: 11 QVRPRSEISPQDCWDITPLYLNRKAWKADLDSFGLKTDGSPTWPALQATQYQLDNSESLL 70
Query: 228 QALMDGKPARSVTLNDFERDSIKQLCLLTMKPIIYVANVAESDLADPGSNPHVNEVMNLA 287
L ++ + K +Y + D+ + + + +L
Sbjct: 71 SLL----------------TTLFSIERKLNKLYVYAHLTHDQDITNQEGIADLKSITHLH 114
Query: 288 SDLQSGRVTISAQVEAELTELPSEERVEYLAS 319
+ ++ V+ LT L ++L++
Sbjct: 115 TLFAE----ETSWVQPALTSLSESLIAQHLSA 142
>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding,
HYDR magnesium, metal-binding, nucleotide-binding,
potassium, TR processing; HET: GDP FON; 3.20A {Nostoc
SP}
Length = 462
Score = 37.9 bits (89), Expect = 0.006
Identities = 15/23 (65%), Positives = 16/23 (69%), Gaps = 4/23 (17%)
Query: 57 LRAG----IVGLPNVGKSTLFNA 75
LR G IVG PNVGKS+L NA
Sbjct: 221 LRTGLKVAIVGRPNVGKSSLLNA 243
>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport
protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo
sapiens}
Length = 349
Score = 36.4 bits (84), Expect = 0.014
Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 14/92 (15%)
Query: 13 ALTLLPKPMESSLFTRNANLIGVLGITTTSSRRRFSSASKISMSLRAGIVGLPNVGKSTL 72
A+TL +ES+ + +L R + S ++ R G+ G P GKST
Sbjct: 35 AITL----VESTHSRKKELAQVLLQKVLLYHREQEQSNKGKPLAFRVGLSGPPGAGKSTF 90
Query: 73 FNAVVENGKAQAANFPFCTIEPNVGIVAVPDP 104
+ + ++AV DP
Sbjct: 91 IEYFGKM---------LTERGHKLSVLAV-DP 112
>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels,
nucleotide-binding, nucleotide binding protein; 2.00A
{Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A
3kxk_A
Length = 364
Score = 34.5 bits (80), Expect = 0.053
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 58 RAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEP 94
GIVG N GK++LFN++ + F T+ P
Sbjct: 181 SIGIVGYTNSGKTSLFNSLTGLT-QKVDTKLFTTMSP 216
>2qr4_A Peptidase M3B, oligoendopeptidase F; structural genomics, PSI-2,
protein ST initiative; 2.50A {Enterococcus faecium}
Length = 587
Score = 34.6 bits (80), Expect = 0.060
Identities = 13/133 (9%), Positives = 41/133 (30%), Gaps = 27/133 (20%)
Query: 189 FSDLDQIEKRMEKLKK--GKAKDSQSKLKEDAEKAALEKIQQALMDGKPARSVTLNDFER 246
+ +++ +L + +++ + L + A + A+
Sbjct: 2 SLSDQEFDEKYLELSEELKQSEKHKGTLDQGASQ-----FLNAI---------------- 40
Query: 247 DSIKQLCLLTMKPIIYVANVAESDLADPGSNPHVNEVMNLASDLQSGRVTISAQVEAELT 306
+ + ++ T +Y + D + +L S + + E E+
Sbjct: 41 EFVLRVYRQTEVIYVYAHLKNDQDTGNTDYQALYARASSLFSKVSE----AVSWFEPEIL 96
Query: 307 ELPSEERVEYLAS 319
+L ++ +Y
Sbjct: 97 QLSDDQIWQYFKE 109
>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET:
GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A*
2j3e_A*
Length = 262
Score = 32.5 bits (74), Expect = 0.20
Identities = 8/36 (22%), Positives = 17/36 (47%)
Query: 56 SLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCT 91
S+ ++G VGKS+ N+++ + + F
Sbjct: 36 SMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEG 71
>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET:
MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10
PDB: 2qm7_A*
Length = 337
Score = 32.0 bits (73), Expect = 0.31
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 10/49 (20%)
Query: 56 SLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDP 104
++R GI G+P VGKST +A+ V ++AV DP
Sbjct: 55 AIRVGITGVPGVGKSTTIDALGSL---------LTAAGHKVAVLAV-DP 93
>3llu_A RAS-related GTP-binding protein C; structural genomics
consortium, SGC, cytoplasm, nucleotide-binding,
nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens}
PDB: 2q3f_A*
Length = 196
Score = 31.5 bits (71), Expect = 0.34
Identities = 8/39 (20%), Positives = 14/39 (35%)
Query: 61 IVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIV 99
++GL GKS++ V F T + +
Sbjct: 25 LMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDI 63
>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein
structure initiative, NEW YORK SGX research for
structural genomics; 1.80A {Escherichia coli} SCOP:
c.37.1.10
Length = 341
Score = 32.1 bits (73), Expect = 0.35
Identities = 15/49 (30%), Positives = 19/49 (38%), Gaps = 10/49 (20%)
Query: 56 SLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDP 104
+LR G+ G P GKST A V ++AV DP
Sbjct: 56 TLRLGVTGTPGAGKSTFLEAFGML---------LIREGLKVAVIAV-DP 94
>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium
tuberculosis} PDB: 3md0_A* 3nxs_A* 3tk1_A*
Length = 355
Score = 31.4 bits (71), Expect = 0.49
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 10/49 (20%)
Query: 56 SLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDP 104
+ R GI G+P VGKST A+ + V ++AV DP
Sbjct: 79 AHRVGITGVPGVGKSTAIEALGMH---------LIERGHRVAVLAV-DP 117
>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer,
immunology, signaling protein; HET: GDP; 1.95A {Mus
musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A*
1tq2_A*
Length = 413
Score = 31.6 bits (71), Expect = 0.52
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 54 SMSLRAGIVGLPNVGKSTLFNA 75
S L + G GKS+ N
Sbjct: 67 SSVLNVAVTGETGSGKSSFINT 88
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.9 bits (69), Expect = 0.57
Identities = 11/59 (18%), Positives = 25/59 (42%), Gaps = 21/59 (35%)
Query: 196 EKRMEKLKKGKAKDSQSKLKEDA--EKAALEKIQQALMDGKPARSVTLNDFERDSIKQL 252
E++ ++L++ D+ SK+ E EKA + L ++ + +Q+
Sbjct: 92 EEQRKRLQE---LDAASKVMEQEWREKAKKD----------------LEEWNQRQSEQV 131
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P,
MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 30.7 bits (69), Expect = 0.75
Identities = 8/36 (22%), Positives = 15/36 (41%)
Query: 61 IVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNV 96
++G GKS++ + + N A TI+
Sbjct: 8 LMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEH 43
>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET:
GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*
Length = 270
Score = 30.7 bits (69), Expect = 0.77
Identities = 11/54 (20%), Positives = 23/54 (42%)
Query: 56 SLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPRLHVL 109
SL ++G VGKS+ N+++ + F P + + L+++
Sbjct: 39 SLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNII 92
>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 = 30.4 bits (68), Expect = 0.79
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 57 LRAGIVGLPNVGKSTLFNAVVENGKAQAANF 87
++ I G P VGK+TL +VE +A F
Sbjct: 1 MKIIITGEPGVGKTTLVKKIVERLGKRAIGF 31
>1g6h_A High-affinity branched-chain amino acid transport ATP-binding
protein; beta-core domain; HET: ADP; 1.60A
{Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB:
1gaj_A 1g9x_A*
Length = 257
Score = 30.2 bits (69), Expect = 1.0
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 51 SKISMSLRAG-IVGL--PN-VGKSTLFN 74
+S+S+ G + + PN GKSTL N
Sbjct: 24 DGVSISVNKGDVTLIIGPNGSGKSTLIN 51
>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 = 29.6 bits (66), Expect = 1.2
Identities = 7/35 (20%), Positives = 16/35 (45%)
Query: 55 MSLRAGIVGLPNVGKSTLFNAVVENGKAQAANFPF 89
+ + G+P VG +T ++N + + N+
Sbjct: 2 KNKVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKM 36
>2hqx_A P100 CO-activator tudor domain; human P100 tudor domain,
proteolytic fragment, PSI, structural genomics; 1.42A
{Homo sapiens} SCOP: b.34.9.1 PDB: 2hqe_A 3omc_A*
3omg_A* 2o4x_A 2e6n_A 2o4x_B
Length = 246
Score = 30.0 bits (67), Expect = 1.4
Identities = 17/79 (21%), Positives = 28/79 (35%), Gaps = 5/79 (6%)
Query: 143 NKFLSHIREVDSILQVVRCFEDNDIVHVNGKVDPKSDVDVINLELVFSDLDQIEKRMEKL 202
+ + I+ +L V V + S D + L LV L +E R EK
Sbjct: 151 DSVVRDIQNTQCLLNVEHLSAGCPHVTL---QFADSKGD-VGLGLVKEGLVMVEVRKEKQ 206
Query: 203 KKGKAKDSQSKLKEDAEKA 221
+ + +E A+ A
Sbjct: 207 FQKVITEYL-NAQESAKSA 224
>2vx3_A Dual specificity tyrosine-phosphorylation- regula kinase 1A;
serine/threonine-protein kinase, minibrain homolog,
nucleotide-binding, transferase; HET: PTR D15 P6G; 2.40A
{Homo sapiens} PDB: 2wo6_A* 3anq_A* 3anr_A*
Length = 382
Score = 30.1 bits (68), Expect = 1.6
Identities = 9/59 (15%), Positives = 22/59 (37%), Gaps = 8/59 (13%)
Query: 370 HSDFEKGFIRAETVAYDDFVAAGSLAAAREKGLLRS----EGKDYIVQEGDVMLFRFNV 424
H G + ++ + +E+ + + DYIV+ G+ + R+ +
Sbjct: 4 HHHHSSG----VDLGTENLYFQSMSSHKKERKVYNDGYDDDNYDYIVKNGEKWMDRYEI 58
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann,
hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 29.3 bits (65), Expect = 1.6
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 56 SLRAGIVGLPNVGKSTLFNAVVE 78
+ + G P VGK+TL + E
Sbjct: 1 ARHVFLTGPPGVGKTTLIHKASE 23
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 28.9 bits (64), Expect = 2.2
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 61 IVGLPNVGKSTLFNAVVENGKAQAANFPF 89
+ G+P VGKST+ V E Q N
Sbjct: 6 VTGIPGVGKSTVLAKVKEILDNQGINNKI 34
>2wac_A CG7008-PA; unknown function, tudor, beta-barrel, nuclease domain,
tudor P100, SND1, methylated arginine, SDMA, splicing;
2.10A {Drosophila melanogaster}
Length = 218
Score = 28.9 bits (64), Expect = 2.4
Identities = 16/70 (22%), Positives = 29/70 (41%), Gaps = 5/70 (7%)
Query: 152 VDSILQVVRCFEDNDIVHVNGKVDPKSDVDVINLELVFSDLDQIEKRMEKLKKGKAKDSQ 211
++ +Q+ + ++ DP + VD +LV L E+R E+ K K+
Sbjct: 142 LNHKVQLNVELKVTGSPNLATLRDPTTKVD-FGKQLVAEGLVLAEQRGER----KLKELV 196
Query: 212 SKLKEDAEKA 221
+ K E A
Sbjct: 197 DQYKAAQEAA 206
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap
DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A
{Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Length = 379
Score = 29.5 bits (66), Expect = 2.5
Identities = 10/58 (17%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 157 QVVRCFEDNDIVHVNGKVDPKSDVDVINLELVFSDLDQIEKRMEKLKKGKAKDSQSKL 214
V E ++ + + + + + E FS+ ++I +++L K + +Q +L
Sbjct: 285 PEVLDPESVELKW--SEPNEEELIKFMCGEKQFSE-ERIRSGVKRLSKSRQGSTQGRL 339
>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 = 28.9 bits (65), Expect = 2.6
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 60 GIVGLPNVGKSTLFNAVVE 78
+ G P GKSTL N +
Sbjct: 26 ALSGAPGSGKSTLSNPLAA 44
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P,
MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 29.3 bits (65), Expect = 2.6
Identities = 8/36 (22%), Positives = 17/36 (47%)
Query: 61 IVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNV 96
++G+ GKS++ V N + + T P++
Sbjct: 4 LMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSL 39
>3k9c_A Transcriptional regulator, LACI family protein; PSI-II, 11026W,
structural genomics, PR structure initiative; 2.14A
{Rhodococcus jostii}
Length = 289
Score = 29.0 bits (66), Expect = 2.8
Identities = 14/59 (23%), Positives = 20/59 (33%), Gaps = 15/59 (25%)
Query: 357 RAGMTAPQAAGVIHSDF--EKGFIRAET-----------VAYDDFVAAGSLAAAREKGL 402
R G++A A V+ +G T VA++D A G L G
Sbjct: 153 RHGLSAS--ATVVTGGTTETEGAEGMHTLLEMPTPPTAVVAFNDRCATGVLDLLVRSGR 209
>2rgy_A Transcriptional regulator, LACI family; 11011J, NYSGXRC,
transctiptional regulator, SUG binding protein,
structural genomics, PSI-2; 2.05A {Burkholderia
phymatum}
Length = 290
Score = 28.7 bits (65), Expect = 3.4
Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 14/59 (23%)
Query: 357 RAGMTAPQAAGVIHSDF--EKGFIRAET-----------VAYDDFVAAGSLAAAREKGL 402
R G+ +I SDF E G+ +D +A +LA ++ G+
Sbjct: 156 RHGIARDSVP-LIESDFSPEGGYAATCQLLESKAPFTGLFCANDTMAVSALARFQQLGI 213
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 28.2 bits (63), Expect = 3.9
Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 4/45 (8%)
Query: 61 IVGLPNVGKSTLFNAVVENGKAQAANFPFCTIEPNVGIVAVPDPR 105
VGL + GK+ LF ++ +I + I V + R
Sbjct: 12 FVGLCDSGKTLLFVRLLTGQYRDT--QT--SITDSSAIYKVNNNR 52
>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A
{Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1
d.67.1.1 d.104.1.1 PDB: 1nyq_A*
Length = 645
Score = 28.7 bits (65), Expect = 4.1
Identities = 11/45 (24%), Positives = 24/45 (53%), Gaps = 6/45 (13%)
Query: 179 DVDVINLELVFS--DLDQIEKRMEKLKKGKAKDSQSKL-KEDAEK 220
D D ++ S D +QIEK M+++ K + + +++A++
Sbjct: 107 DFD---IDQNISSDDFEQIEKTMKQIVNENMKIERKVVSRDEAKE 148
>2cly_B ATP synthase D chain, mitochondrial; mitochondrion, ION transport,
CF(0), stator, transport, acetylation, hydrogen ION
transport; 2.8A {Bos taurus} SCOP: f.53.1.1 PDB: 2wss_U*
Length = 160
Score = 28.0 bits (62), Expect = 4.4
Identities = 8/37 (21%), Positives = 15/37 (40%)
Query: 193 DQIEKRMEKLKKGKAKDSQSKLKEDAEKAALEKIQQA 229
D EK+ LK +D + + EK ++ +
Sbjct: 67 DDFEKKFNALKVPIPEDKYTAQVDAEEKEDVKSCAEF 103
>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP;
1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A*
1svw_A*
Length = 195
Score = 27.9 bits (63), Expect = 4.6
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 10/32 (31%)
Query: 66 NVGKSTLFNAVVEN----------GKAQAANF 87
NVGKS+ N+++ GK Q NF
Sbjct: 33 NVGKSSFINSLINRKNLARTSSKPGKTQTLNF 64
>3m66_A Mterf3, mterf domain-containing protein 1, mitochondrial;
mitochondrion, DNA binding protein, transcription
factor, transcription termination; 1.60A {Homo sapiens}
PDB: 3opg_A 3my3_A
Length = 270
Score = 28.2 bits (63), Expect = 4.6
Identities = 9/32 (28%), Positives = 15/32 (46%)
Query: 311 EERVEYLASLGVSESGLGNLIRSTYSLLGLRT 342
+ RV YL S S++ + ++R LL
Sbjct: 77 KTRVAYLHSKNFSKADVAQMVRKAPFLLNFSV 108
Score = 28.2 bits (63), Expect = 4.9
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 312 ERVEYLASLGVSESGLGNLIRSTYSLLGLR 341
E ++ L LGV S + + LL L
Sbjct: 7 ETLQKLVLLGVDLSKIEKHPEAANLLLRLD 36
Score = 28.2 bits (63), Expect = 5.2
Identities = 4/29 (13%), Positives = 16/29 (55%)
Query: 311 EERVEYLASLGVSESGLGNLIRSTYSLLG 339
++ + +L +G+ ++ LG + +++
Sbjct: 42 KQMLLFLKDVGIEDNQLGAFLTKNHAIFS 70
>2k5d_A Uncharacterized protein SAG0934; solution structure, primosomal
protein, DUF961, construct optimized, structural
genomics; NMR {Streptococcus agalactiae serogroup V}
Length = 116
Score = 27.3 bits (60), Expect = 5.1
Identities = 9/31 (29%), Positives = 12/31 (38%)
Query: 285 NLASDLQSGRVTISAQVEAELTELPSEERVE 315
+L S Q + +S L E RVE
Sbjct: 47 DLKSKGQGRMIQVSIPASVPLKEFDYNARVE 77
>2o20_A Catabolite control protein A; CCPA, transcriptional regulator,
helix-turn-helix, transcrip; 1.90A {Lactococcus lactis}
Length = 332
Score = 28.2 bits (64), Expect = 5.1
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 11/46 (23%)
Query: 368 VIHSDF--EKGFIRAET---------VAYDDFVAAGSLAAAREKGL 402
V ++ E+G AE V D VA G L+A +KG+
Sbjct: 218 VFEGNYSYEQGKALAERLLERGATSAVVSHDTVAVGLLSAMMDKGV 263
>3kke_A LACI family transcriptional regulator; structural genomics,
DNA-binding, transcription regulation, PSI-2; 2.20A
{Mycobacterium smegmatis str}
Length = 303
Score = 28.3 bits (64), Expect = 5.3
Identities = 7/20 (35%), Positives = 9/20 (45%)
Query: 383 VAYDDFVAAGSLAAAREKGL 402
V A G+L+ A GL
Sbjct: 202 VVASVNAAVGALSTALRLGL 221
>3izc_Z 60S ribosomal protein RPL24 (L24E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_Z
3o58_V 3o5h_V 3u5e_W 3u5i_W 1s1i_S 2x7n_D
Length = 155
Score = 27.4 bits (60), Expect = 5.3
Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 3/44 (6%)
Query: 194 QIEKRMEKLKKGKAKDSQSKLKEDAEKAALEKIQQALMDGKPAR 237
E+++ K K K K AEKA Q + + A+
Sbjct: 104 NREEKL---KANKEKKKAEKAARKAEKAKSAGTQSSKFSKQQAK 144
>3mva_O Transcription termination factor, mitochondrial; all alpha-helix,
protein-DNA, transcription factor, terminat
mitochondria; 2.20A {Homo sapiens} PDB: 3n6s_A* 3mvb_O
3n7q_A*
Length = 343
Score = 28.1 bits (62), Expect = 5.5
Identities = 5/31 (16%), Positives = 13/31 (41%)
Query: 311 EERVEYLASLGVSESGLGNLIRSTYSLLGLR 341
++ +L S G S+ + ++I +
Sbjct: 52 QDLKMFLLSKGASKEVIASIISRYPRAITRT 82
Score = 27.7 bits (61), Expect = 8.0
Identities = 9/71 (12%), Positives = 21/71 (29%), Gaps = 13/71 (18%)
Query: 307 ELPSEERVEYLASLGVSESGLGNLIRSTYSLLGL-------------RTYFTSGEKETKA 353
L E +++L S+G++ L L+ + + G +
Sbjct: 120 NLNLENNIKFLYSVGLTRKCLCRLLTNAPRTFSNSLDLNKQMVEFLQAAGLSLGHNDPAD 179
Query: 354 WTIRAGMTAPQ 364
+ + P
Sbjct: 180 FVRKIIFKNPF 190
>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics,
nysgxrc T16, GTPase, PSI, protein structure initiative;
2.00A {Escherichia coli} SCOP: c.37.1.8
Length = 210
Score = 27.6 bits (62), Expect = 5.7
Identities = 11/47 (23%), Positives = 17/47 (36%), Gaps = 12/47 (25%)
Query: 66 NVGKSTLFNAVVEN----------GKAQAANFPFCTIEPNVGIVAVP 102
N GKS+ N + G+ Q N F + +V +P
Sbjct: 36 NAGKSSALNTLTNQKSLARTSKTPGRTQLINL-F-EVADGKRLVDLP 80
>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase,
cell division, cell cycle, SEP GTP-binding; 2.20A
{Burkholderia thailandensis}
Length = 223
Score = 27.7 bits (62), Expect = 5.7
Identities = 9/32 (28%), Positives = 12/32 (37%), Gaps = 10/32 (31%)
Query: 66 NVGKSTLFNAVVEN----------GKAQAANF 87
N GKST N + G+ Q N+
Sbjct: 39 NAGKSTAINVLCNQKRLAFASKTPGRTQHINY 70
>1f0y_A HCDH, L-3-hydroxyacyl-COA dehydrogenase; abortive ternary complex,
oxidoreductase; HET: CAA NAD; 1.80A {Homo sapiens} SCOP:
a.100.1.3 c.2.1.6 PDB: 3rqs_A 1lsj_A* 1il0_A* 1lso_A*
1m76_A* 1m75_A* 1f14_A 1f12_A 1f17_A* 3had_A* 2hdh_A*
3hdh_A*
Length = 302
Score = 27.9 bits (63), Expect = 6.5
Identities = 8/45 (17%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 183 INLELVFSDLDQIEKRMEKLKKGKAKDSQSKLKEDAEKAALEKIQ 227
+++ IE+ + K+ K K ++ K ++ + L I
Sbjct: 46 QTEDILAKSKKGIEESLRKVAKKKFAENP-KAGDEFVEKTLSTIA 89
>3g85_A Transcriptional regulator (LACI family); transcription regulator,
PSI-II, structural genomics structure initiative; 1.84A
{Clostridium acetobutylicum atcc 824}
Length = 289
Score = 27.5 bits (62), Expect = 7.8
Identities = 6/48 (12%), Positives = 16/48 (33%), Gaps = 13/48 (27%)
Query: 368 VIHSDF--EKGFIRAET-----------VAYDDFVAAGSLAAAREKGL 402
+I ++ G A+ D +A G ++ ++ +
Sbjct: 165 IIAAENSIHGGVDAAKKLMKLKNTPKALFCNSDSIALGVISVLNKRQI 212
>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative
iron chelatin ABC transporter, nucleotide binding
domain; 2.40A {Haemophilus influenzae}
Length = 253
Score = 27.5 bits (62), Expect = 7.9
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 6/29 (20%)
Query: 53 ISMSLRAG----IVGLPN-VGKSTLFNAV 76
++ L G ++G N GKSTL + +
Sbjct: 24 LNFDLNKGDILAVLG-QNGCGKSTLLDLL 51
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces
cerevisiae}
Length = 1219
Score = 27.9 bits (62), Expect = 8.2
Identities = 17/132 (12%), Positives = 37/132 (28%), Gaps = 21/132 (15%)
Query: 125 FVDIAGLVKGASQGEGLGNKFLSH-IREVDSILQVVRCFEDNDIVHVNGKVDPKSDVDV- 182
V+ + L E+ I + KV +D
Sbjct: 919 ICTTNSEVECVVNAQRHAGAQLRRPANEIYEIGKTYPA-----------KVI---YIDYA 964
Query: 183 ---INLELVFSDLDQIEKRMEKLKKGKAKDSQSKLKEDAEKAALEKIQQALMDGKPARSV 239
+ L+ D+ Q + K D + +L++ E+ L + + R +
Sbjct: 965 NITAEVSLLDHDVKQQYVPISYSKDPSIWDLKQELEDAEEERKLMMAEAR--AKRTHRVI 1022
Query: 240 TLNDFERDSIKQ 251
+ + +Q
Sbjct: 1023 NHPYYFPFNGRQ 1034
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage
T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Length = 290
Score = 27.7 bits (62), Expect = 8.4
Identities = 6/37 (16%), Positives = 10/37 (27%), Gaps = 3/37 (8%)
Query: 189 FSDLDQIEKRMEKLKKGKAKDSQSKLKEDAEKAALEK 225
F ++ I ++ K K L E
Sbjct: 223 FGNVLDIIDQLPLPGKQKYIQ---NLNASEELLFRNL 256
>3bbl_A Regulatory protein of LACI family; protein structure initiative II,
PSI-II, NYSGXRC, transcript regulator, periplasmic
binding protein; 2.35A {Chloroflexus aggregans}
Length = 287
Score = 27.5 bits (62), Expect = 8.6
Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 16/61 (26%)
Query: 357 RAGMTAPQAAGVIHSDF--EKGFIRAET-------------VAYDDFVAAGSLAAAREKG 401
A + ++ + E G + +D +A G++AAARE+G
Sbjct: 153 TAQLPIETGY-ILRGEGTFEVGRAMTLHLLDLSPERRPTAIMTLNDTMAIGAMAAARERG 211
Query: 402 L 402
L
Sbjct: 212 L 212
>1tke_A Threonyl-tRNA synthetase; ligase; 1.46A {Escherichia coli} SCOP:
d.15.10.1 d.67.1.1 PDB: 1tje_A 1tkg_A* 1tky_A*
Length = 224
Score = 27.1 bits (61), Expect = 8.7
Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 5/28 (17%)
Query: 179 DVDVINLELVFS--DLDQIEKRMEKLKK 204
DVD L+ + D++ +EKRM +L +
Sbjct: 105 DVD---LDRTLTQEDVEALEKRMHELAE 129
>3k4h_A Putative transcriptional regulator; structural genomics, protein
structure INI NEW YORK structural genomix research
consortium; HET: MAL; 2.80A {Bacillus cytotoxicus nvh
391-98}
Length = 292
Score = 27.5 bits (62), Expect = 9.3
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 13/48 (27%)
Query: 368 VIHSDF--EKGFIRAET-----------VAYDDFVAAGSLAAAREKGL 402
++H DF E G E +A DD + G L+A +KG
Sbjct: 169 ILHFDFSRESGQQAVEELMGLQQPPTAIMATDDLIGLGVLSALSKKGF 216
>3brq_A HTH-type transcriptional regulator ASCG; transcriptional repressor
structure escherichia coli, struct genomics, PSI-2; HET:
FRU; 2.00A {Escherichia coli}
Length = 296
Score = 27.1 bits (61), Expect = 9.9
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 383 VAYDDFVAAGSLAAAREKGL 402
VA +D +A G++ A E+G+
Sbjct: 205 VASNDDMAIGAMKALHERGV 224
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 0.132 0.362
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,265,020
Number of extensions: 391982
Number of successful extensions: 1344
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1301
Number of HSP's successfully gapped: 129
Length of query: 424
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 328
Effective length of database: 4,021,377
Effective search space: 1319011656
Effective search space used: 1319011656
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: 59 (26.5 bits)