RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780689|ref|YP_003065102.1| flagellar motor switch protein
G [Candidatus Liberibacter asiaticus str. psy62]
(345 letters)
>3hjl_A Flagellar motor switch protein FLIG; armadillo repeat motif,
superhelix, conformational plasticit repeat, torque
generation; 2.40A {Aquifex aeolicus}
Length = 329
Score = 190 bits (484), Expect = 3e-49
Identities = 73/325 (22%), Positives = 150/325 (46%), Gaps = 6/325 (1%)
Query: 21 SLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQ 80
+L++ KA +LL++ ++VS +++ + EL+++ A AK L + EE+E+I +E +
Sbjct: 8 ALSKAQKAAVLLLSLPEEVSMNIVKELSEEELQKLFALAKDLESVPEEEIENIAEELLDE 67
Query: 81 FIAGIGLTENSKNIESILEEGLEQNELEKLLNKSDISQENNNSIWDHLKETDPGVIADFL 140
+ + +++ + EK + + I +++ D ++A L
Sbjct: 68 IKKAGIKIKKPEEFIENIKKVIPPTLAEKFRGI--LELGDAEKILKEIEKVDSRILASLL 125
Query: 141 SKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKRTVNLPKISPYIQKTIEKCIVE- 199
EHPQT A LS + P A ++ P ++ +++KR L ++ K + + ++E
Sbjct: 126 KNEHPQTIALFLSQLSPKKSAEIIQNLPEELKKEVVKRIATLENVNVQYVKELAQILLEE 185
Query: 200 --MLPQSNSNTSTGPEKVANLINELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDLIT 257
L + G A L+N L+K + +L S+ + +++R K+F F+D+
Sbjct: 186 ISSLGAKEALKLEGTAVAAELLNTLDKETRELILQSIGQEDPLLEERIREKMFTFEDIRK 245
Query: 258 LSSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKIIEENIVLNDSSIAPRE 317
LS D+ + + L AL G + + L +S R K+ E++ + E
Sbjct: 246 LSDRDIIEILKVVDKNTLMIALLGAPEDIKQKFLSNMSKRAAKLFLEDME-ALGPVKKSE 304
Query: 318 VAMARRSIVQEAISLLKTNKIELSN 342
+ A+R +V ++ KIE+ +
Sbjct: 305 IEKAQRQVVNIIRKMIDEGKIEIGD 329
>1lkv_X Flagellar motor switch protein FLIG; chemotaxis, flagellar motion,
structural protein; 2.80A {Thermotoga maritima} SCOP:
a.118.14.1
Length = 232
Score = 97.1 bits (241), Expect = 6e-21
Identities = 54/220 (24%), Positives = 111/220 (50%), Gaps = 4/220 (1%)
Query: 125 WDHLKETDPGVIADFLSKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKRTVNLPK 184
+ +++TDP + +FL EHPQT A VLS + P + A +L P ++ +++KR L +
Sbjct: 5 FSFVRDTDPVQLVNFLQSEHPQTIAVVLSYLDPPVAAQILGALPEELQTEVLKRIALLER 64
Query: 185 ISPYIQKTIEKCIVEM---LPQSNSNTSTGPEKVANLINELEKPQVDKLLTSLQEVSKEA 241
SP + K IE+ + + + G + A ++N L++ K++ L + + E
Sbjct: 65 TSPEVVKEIERNLEKKISGFVSRTFSKVGGIDTAAEIMNNLDRTTEKKIMDKLVQENPEL 124
Query: 242 FDKVRPKVFLFDDLITLSSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKI 301
D++R ++F+F+D++ L + +V + L AL G S E + I +S R +
Sbjct: 125 ADEIRRRMFVFEDILKLDDRSIQLVLREVDTRDLALALKGASDELKEKIFKNMSKRAAAL 184
Query: 302 IEENIVLNDSSIAPREVAMARRSIVQEAISLLKTNKIELS 341
+++ + + ++V A++ I+ L + +I ++
Sbjct: 185 LKDELEY-MGPVRLKDVEEAQQKIINIIRRLEEAGEIVIA 223
>1qc7_A Protein (FLIG); flagellar motor switch protein, structural protein;
2.20A {Thermotoga maritima} SCOP: a.118.14.1
Length = 101
Score = 70.5 bits (173), Expect = 5e-13
Identities = 19/92 (20%), Positives = 43/92 (46%), Gaps = 1/92 (1%)
Query: 250 FLFDDLITLSSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKIIEENIVLN 309
F+F+D++ L + +V + L AL G S E + I +S R ++++ +
Sbjct: 2 FVFEDILKLDDRSIQLVLREVDTRDLALALKGASDELKEKIFKNMSKRAAALLKDELE-Y 60
Query: 310 DSSIAPREVAMARRSIVQEAISLLKTNKIELS 341
+ ++V A++ I+ L + +I ++
Sbjct: 61 MGPVRLKDVEEAQQKIINIIRRLEEAGEIVIA 92
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 63.8 bits (155), Expect = 6e-11
Identities = 71/498 (14%), Positives = 137/498 (27%), Gaps = 244/498 (48%)
Query: 19 PVSLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPE-----------ISP 67
P++L+ +L V F ++L+E K+LPE +P
Sbjct: 8 PLTLSHGSLEHVLL------VPTAS--FFIASQLQE--QFNKILPEPTEGFAADDEPTTP 57
Query: 68 EEL------------ED------------IIDEFESQFIAGIGLTENSKNIESILEEGLE 103
EL E + EFE+ ++ G +I ++ + L
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG-------NDIHALAAK-LL 109
Query: 104 QNELEKLLNKSDI--------------------S-------------------QENNNSI 124
Q L+ ++ S Q N +
Sbjct: 110 QENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY 169
Query: 125 WDHLKE---TDPGVIADFLSK-----------------------------EHPQTT---A 149
++ L++ T ++ D + E+P T
Sbjct: 170 FEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD 229
Query: 150 YVLSMMP---PSIGASVLLRFPNKIHADIMKRTVNLPK-ISPYIQ--------------- 190
Y+LS +P P IG L + + A ++ T P + Y++
Sbjct: 230 YLLS-IPISCPLIGVIQLAHY--VVTAKLLGFT---PGELRSYLKGATGHSQGLVTAVAI 283
Query: 191 ----------KTIEKCIVEML-----------PQSNSNTSTGPEKVAN--------L-IN 220
++ K + +L P ++ S + + N L I+
Sbjct: 284 AETDSWESFFVSVRKA-ITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 221 ELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDLITLSSHDLSIVFNN--ISLEVLG-- 276
L + QV + + P + I N +L V G
Sbjct: 343 NLTQEQVQDYV--------NKTNSHLPA----------GKQ-VEISLVNGAKNLVVSGPP 383
Query: 277 KALHG----------TSIETQNAILHCLSNRQRK------------------------II 302
++L+G S Q+ I +RK +I
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPF----SERKLKFSNRFLPVASPFHSHLLVPASDLI 439
Query: 303 EENIVLNDSSIAPREVAM 320
+++V N+ S +++ +
Sbjct: 440 NKDLVKNNVSFNAKDIQI 457
Score = 52.3 bits (125), Expect = 2e-07
Identities = 54/307 (17%), Positives = 90/307 (29%), Gaps = 149/307 (48%)
Query: 19 PVS-----LTQKDKATAILLA--MEKQVSGKLLRHFTHAELKE------------IVASA 59
P+S + Q LA + V+ KLL FT EL+ + A A
Sbjct: 235 PISCPLIGVIQ--------LAHYV---VTAKLL-GFTPGELRSYLKGATGHSQGLVTAVA 282
Query: 60 KLLPEISPEELEDIIDEFESQFIAGIGLTENSKN-IE--------------------SIL 98
I+ D +ES F + + I SIL
Sbjct: 283 -----IA------ETDSWES-FF------VSVRKAITVLFFIGVRCYEAYPNTSLPPSIL 324
Query: 99 EE----------------GLEQNELEKLLNKSDISQENNNSIWDHLKETDPGVIADFL-- 140
E+ L Q +++ +NK+ NS HL I+ L
Sbjct: 325 EDSLENNEGVPSPMLSISNLTQEQVQDYVNKT-------NS---HLPAGKQVEIS--LVN 372
Query: 141 SKEHPQTTAYVLSMMPPSI-GASVLLR--------FPNKIHADIMKRTVN-----LPKI- 185
+ V+S P S+ G ++ LR ++I +R + LP +
Sbjct: 373 G---AK--NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS--ERKLKFSNRFLP-VA 424
Query: 186 ----SPYIQKTIEKCIVEMLPQSNS------------NTSTGP---EKVANLINEL---- 222
S + + I + L ++N +T G ++ +
Sbjct: 425 SPFHSHLLVPASDL-INKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI 483
Query: 223 -EKPQVD 228
P V
Sbjct: 484 IRLP-VK 489
>2zy9_A Mg2+ transporter MGTE; membrane protien, metal transport; 2.94A
{Thermus thermophilus HB8} PDB: 2yvx_A
Length = 473
Score = 35.9 bits (82), Expect = 0.015
Identities = 23/130 (17%), Positives = 50/130 (38%), Gaps = 19/130 (14%)
Query: 116 ISQENNNSIWDHLKETDPGVIADFLSKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADI 175
+ ++ S+ + L+E D + + L + HPQ + + VL P A++
Sbjct: 24 MEEKLAVSLQEALQEGDTRALREVLEEIHPQDLLALWDELKGEHRYVVLTLLPKAKAAEV 83
Query: 176 MKRTVNLPKISPYIQKTIEKCIVEMLPQSNSNTSTGPEKVANLINELEKPQVDKLLTSLQ 235
L +SP Q ++ LP P ++ ++ EL + L +++
Sbjct: 84 ------LSHLSPEEQAE----YLKTLP---------PWRLREILEELSLDDLADALQAVR 124
Query: 236 EVSKEAFDKV 245
+ F ++
Sbjct: 125 KEDPAYFQRL 134
>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 = 31.5 bits (70), Expect = 0.26
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 8/36 (22%)
Query: 239 KEAFDKVRPKVFLF-DDLITLSSHDLSIVFNNISLE 273
K+A K++ + L+ DD S+ L+I ++E
Sbjct: 19 KQALKKLQASLKLYADD----SAPALAI---KATME 47
Score = 31.5 bits (70), Expect = 0.29
Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 13/33 (39%)
Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEIS-P 67
EKQ LK++ AS KL + S P
Sbjct: 18 EKQA------------LKKLQASLKLYADDSAP 38
>3lut_A Voltage-gated potassium channel subunit beta-2; voltage gating,
potassium channel, KV1.2, gating charges, no analysis,
acetylation; HET: NAP; 2.90A {Rattus norvegicus}
Length = 367
Score = 30.8 bits (69), Expect = 0.46
Identities = 6/24 (25%), Positives = 15/24 (62%)
Query: 50 AELKEIVASAKLLPEISPEELEDI 73
+L E + + ++LP++S + +I
Sbjct: 328 EQLMENIGAIQVLPKLSSSIVHEI 351
>3eau_A Voltage-gated potassium channel subunit beta-2; kvbeta, cortisone,
NADPH, cytoplasm, ION transport, ionic channel, NADP,
phosphoprotein; HET: NDP PDN; 1.82A {Rattus norvegicus}
SCOP: c.1.7.1 PDB: 2r9r_A* 2a79_A* 1exb_A* 3eb4_A*
3eb3_A* 1qrq_A* 1zsx_A*
Length = 327
Score = 30.8 bits (68), Expect = 0.49
Identities = 6/24 (25%), Positives = 15/24 (62%)
Query: 50 AELKEIVASAKLLPEISPEELEDI 73
+L E + + ++LP++S + +I
Sbjct: 294 EQLMENIGAIQVLPKLSSSIVHEI 317
>2d2r_A Undecaprenyl pyrophosphate synthase; prenyltransferase; 1.88A
{Helicobacter pylori} PDB: 2dtn_A
Length = 245
Score = 30.6 bits (68), Expect = 0.52
Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 3/44 (6%)
Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFES 79
E ++S LL ++AEL + L P+ +P++LE+II +F
Sbjct: 195 EMRLSNFLLWQSSYAEL---FFTPILWPDFTPKDLENIISDFYK 235
>2vg3_A Undecaprenyl pyrophosphate synthetase; transferase, cell WALL
biogenesis/degradation, cell cycle, cell shape, cell
division; HET: GPP; 1.8A {Mycobacterium tuberculosis}
PDB: 2vg2_A* 2vg4_A
Length = 284
Score = 30.2 bits (67), Expect = 0.78
Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 3/44 (6%)
Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFES 79
E++ S +L +AE + KL P+ +L +E+ S
Sbjct: 236 EQRSSNFMLWQAAYAEY---IFQDKLWPDYDRRDLWAACEEYAS 276
>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability,
potential tentoxin binding site, hydrolase; 3.20A
{Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11
PDB: 1kmh_A*
Length = 507
Score = 29.9 bits (67), Expect = 0.87
Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 42 KLLRHF--THAELKEIVASAKLLPEISPEELEDIIDEFESQFIA 83
+L + E +EI++S K E + L++ I E +F+
Sbjct: 460 ELRTYVKTNKPEFQEIISSTKTFTEEAEALLKEAIQEQMERFLL 503
>1zq1_C Glutamyl-tRNA(Gln) amidotransferase subunit E; X-RAY, 3D structure,
asparaginase 1 family, GATD subfamily, lyase; 3.00A
{Pyrococcus abyssi} SCOP: a.182.1.2 d.74.4.1 d.128.1.5
Length = 633
Score = 29.6 bits (66), Expect = 0.99
Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 8/74 (10%)
Query: 10 FKNLYKEISPVSLTQKDKATAILLAMEKQVSGKLLRHF-------THAELKEIVASAKLL 62
K L KE+ ++T + A L +E +++ + +E+ K L
Sbjct: 510 LKGLRKEVPIENVTDEHIREAFQLYLEGKIAKEAFEEIFKELARNPSKSAREVAE-EKGL 568
Query: 63 PEISPEELEDIIDE 76
+S EE+ II+E
Sbjct: 569 TLLSEEEVTRIIEE 582
>3e0x_A Lipase-esterase related protein; APC60309, clostridium
acetobutylicum ATCC 824, structural genomics, PSI-2;
HET: MSE; 1.45A {Clostridium acetobutylicum}
Length = 245
Score = 29.2 bits (63), Expect = 1.4
Identities = 6/36 (16%), Positives = 15/36 (41%)
Query: 42 KLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEF 77
+ + ++ELK L ++ + + + I F
Sbjct: 209 IIKKEVENSELKIFETGKHFLLVVNAKGVAEEIKNF 244
>2ck3_A ATP synthase alpha chain heart isoform; ATP phosphorylase, ATP
phosphorylase (H+ transporting), F1FO ATP synthase,
F1-ATPase, hydrolase, ATP synthesis; HET: ANP ADP; 1.9A
{Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB:
1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A*
1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2w6j_A 2w6e_A
2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* 1efr_A* ...
Length = 510
Score = 29.4 bits (66), Expect = 1.4
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 2/44 (4%)
Query: 42 KLLRHF--THAELKEIVASAKLLPEISPEELEDIIDEFESQFIA 83
L H H L + + + E S +L++I+ F + F A
Sbjct: 467 AFLSHVISQHQALLGKIRTDGKISEESDAKLKEIVTNFLAGFEA 510
>2vg0_A Short-chain Z-isoprenyl diphosphate synthetase; peptidoglycan
synthesis, cell WALL biogenesis/degradation, secreted,
cell shape; HET: GPP; 1.7A {Mycobacterium tuberculosis}
PDB: 2vfw_A* 2vg1_A*
Length = 227
Score = 29.1 bits (64), Expect = 1.6
Identities = 7/44 (15%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFES 79
E+++SG LL ++E + + P + + ++ +
Sbjct: 186 EQRLSGFLLWQSAYSE---MWFTEAHWPAFRHVDFLRALRDYSA 226
>3fsg_A Alpha/beta superfamily hydrolase; PF00561, MCSG, PSI, PSI-2,
structural genomics, protein structure initiative; 2.00A
{Oenococcus oeni psu-1}
Length = 272
Score = 28.9 bits (63), Expect = 1.7
Identities = 8/36 (22%), Positives = 14/36 (38%)
Query: 42 KLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEF 77
KL+ H + E+ + + L E + D F
Sbjct: 229 KLINHNENGEIVLLNRTGHNLMIDQREAVGFHFDLF 264
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 29.0 bits (64), Expect = 1.8
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 15/75 (20%)
Query: 13 LYKEISPVSLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKL---LPE----- 64
L KE+ V ++ KA +I A+E +V +A++ EI A + PE
Sbjct: 744 LRKEL--VETSEVRKAVSIETALEHKVVNGNSADAAYAQV-EIQPRANIQLDFPELKPYK 800
Query: 65 ----ISPEELEDIID 75
I+P ELE ++D
Sbjct: 801 QVKQIAPAELEGLLD 815
>3lwj_A Putative TETR-family transcriptional regulator; structural
genomics, joint center for structural genomics, JCSG;
2.07A {Syntrophomonas wolfei subsp}
Length = 202
Score = 28.8 bits (64), Expect = 1.8
Identities = 9/44 (20%), Positives = 18/44 (40%)
Query: 42 KLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQFIAGI 85
+ H A K + +L I+ EE+ +++ F G+
Sbjct: 154 SPIAHSILAIEKFSLYKWVVLKAITKEEMIEMVLSFHKTLAVGL 197
>3d23_B 3C-like proteinase; main protease, ATP-binding, cytoplasm,
endonuclease, exonuclease, helicase, hydrolase,
membrane, metal-binding; HET: 3IH; 2.50A {Human
coronavirus HKU1}
Length = 302
Score = 28.6 bits (64), Expect = 1.9
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 255 LITLSSHDLSIVFNNISLEVLGKALHGT----SIETQNA 289
L ++ D +I+ +SL V+ + G ++ QN
Sbjct: 60 LCRVTLGDFTIMSGRMSLTVVSYQMQGCQLVLTVSLQNP 98
>1ueh_A Undecaprenyl pyrophosphate synthase; parallel alpha-beta,
rossmann-like fold, transferase; HET: OXN; 1.73A
{Escherichia coli} SCOP: c.101.1.1 PDB: 1jp3_A* 1v7u_A*
1x06_A* 1x07_A* 2e98_A* 2e99_A* 2e9a_A* 2e9c_A* 2e9d_A*
1x09_A* 1x08_A*
Length = 253
Score = 28.6 bits (63), Expect = 1.9
Identities = 10/44 (22%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFES 79
E ++S LL +AE + + L P+ ++ E ++ F +
Sbjct: 198 EHRISNFLLWQIAYAE---LYFTDVLWPDFDEQDFEGALNAFAN 238
>2oux_A Magnesium transporter; 10001B, structural genomics, PSI-2, protein
structure initiative, nysgxrc; 2.16A {Enterococcus
faecalis V583} SCOP: a.118.26.1 d.37.1.1
Length = 286
Score = 28.3 bits (62), Expect = 2.4
Identities = 9/66 (13%), Positives = 17/66 (25%)
Query: 111 LNKSDISQENNNSIWDHLKETDPGVIADFLSKEHPQTTAYVLSMMPPSIGASVLLRFPNK 170
LN+ +E + + LK + H + + K
Sbjct: 2 LNEGQEMEEQFALLLETLKNQQMNEFRELFLALHIYEQGQFYQSLDEKDRQHLYNYLSPK 61
Query: 171 IHADIM 176
AD+
Sbjct: 62 ELADMF 67
>2d6f_C Glutamyl-tRNA(Gln) amidotransferase subunit E; ligase, ligase/RNA
complex; 3.15A {Methanothermobacterthermautotrophicus}
SCOP: a.182.1.2 d.74.4.1 d.128.1.5
Length = 619
Score = 28.5 bits (63), Expect = 2.6
Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 7/67 (10%)
Query: 15 KEISPVSLTQKDKATAILLAMEKQVSGKLLRH-----FTHAELKEIVASAKLLPEISPEE 69
++ + L + AI L ++S LR E A L ++ +E
Sbjct: 506 HDVDGLGLDEL--RDAIKLLEVGKISKDALRDIVACMADEGLAAEDAARKLNLLLLAEDE 563
Query: 70 LEDIIDE 76
+E II E
Sbjct: 564 IESIIQE 570
Score = 27.3 bits (60), Expect = 4.9
Identities = 12/74 (16%), Positives = 26/74 (35%), Gaps = 11/74 (14%)
Query: 51 ELKEIVASAKLLPEISPEELEDIIDEFESQFIAGIG-------LTENSKNIESILEE-GL 102
L+E+ + + +EL D I E I+ + + E + L
Sbjct: 497 TLRELRREGHDVDGLGLDELRDAIKLLEVGKISKDALRDIVACMADEGLAAEDAARKLNL 556
Query: 103 EQ---NELEKLLNK 113
+E+E ++ +
Sbjct: 557 LLLAEDEIESIIQE 570
>3h0l_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B; multi
protein complex, ligase, protein biosynthesis; HET: ADP;
2.30A {Aquifex aeolicus} PDB: 3h0m_B 3h0r_B*
Length = 478
Score = 27.9 bits (62), Expect = 3.2
Identities = 11/68 (16%), Positives = 25/68 (36%), Gaps = 6/68 (8%)
Query: 15 KEISPVSLTQKDKATAILLAMEKQVSGKLLRHF------THAELKEIVASAKLLPEISPE 68
I + + A + L EK +S K+ + T +IV L
Sbjct: 360 ISIEESPVKPEHLAELVKLIKEKVISTKIGKEVIKEMVETGKTPSQIVEEKGLKQITDEN 419
Query: 69 ELEDIIDE 76
++++++ +
Sbjct: 420 QIKELVKK 427
>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, joint
center for structural genomics, JCSG, protein structure
initiative; HET: ATP PG4; 2.10A {Thermotoga maritima
MSB8}
Length = 515
Score = 27.9 bits (62), Expect = 3.6
Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 42 KLLRHF--THAELKEIVASAKLLPEISPEELEDIIDEFESQF 81
+ LR H ++ + + + K L + E+L+ I+EF++ F
Sbjct: 472 EFLRFMHEKHQDILDDIKTKKELTSETEEKLKKAIEEFKTTF 513
>2h2z_A PP1AB, ORF1AB, replicase polyprotein 1AB; main protease, authentic
N and C termini, viral protein; 1.60A {Sars coronavirus}
PDB: 1uk2_A 1uk3_A 1uk4_A 1z1i_A 2a5a_A 1uj1_A* 2bx3_A
2bx4_A 2c3s_A 2a5i_A 2gt7_A* 2gx4_A* 2gz7_A* 2gz8_A*
2gz9_A 2duc_A 2hob_A* 2v6n_A* 2z3c_A* 2z3d_A* ...
Length = 306
Score = 27.9 bits (62), Expect = 3.6
Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 4/41 (9%)
Query: 253 DDLITLSSHDLSIVFNNISLEVLGKALHGT----SIETQNA 289
D LI S+H + N+ L V+G ++ ++T N
Sbjct: 56 DLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNP 96
>3al0_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase; protein-RNA
complex, ligase-RNA complex; HET: GSU; 3.37A {Thermotoga
maritima}
Length = 482
Score = 27.6 bits (61), Expect = 4.0
Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 6/72 (8%)
Query: 11 KNLYKEISPVSLTQKDKATAILLAMEKQVSGKLLRHF------THAELKEIVASAKLLPE 64
EI+ LT + A L E ++S K+ + T +IV L
Sbjct: 360 NERNIEITESKLTPQHFADLFKLMDEGKISIKIAKEIFPEVFETGKMPSQIVEEKGLTQI 419
Query: 65 ISPEELEDIIDE 76
+ +E+++ +
Sbjct: 420 NDEKLIEELVKK 431
>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase,
single particle analysis, thermoalkaliphilic, hydrolase;
3.06A {Bacillus SP} PDB: 1sky_B
Length = 502
Score = 27.4 bits (61), Expect = 4.6
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 42 KLLRHF--THAELKEIVASAKLLPEISPEELEDIIDEFESQFIA 83
+LL L + + LP+ +EL+ I+EF+ F
Sbjct: 459 ELLSFMRANKDSLLDHIRQTGELPDT--KELDAAIEEFKKGFTP 500
>1c07_A Protein (epidermal growth factor receptor pathway substrate 15);
calcium binding, signaling domain, NPF binding, FW
binding, EF-hand, EH domain; NMR {Homo sapiens} SCOP:
a.39.1.6
Length = 95
Score = 27.3 bits (60), Expect = 5.3
Identities = 20/102 (19%), Positives = 29/102 (28%), Gaps = 18/102 (17%)
Query: 65 ISPEELEDIIDEFESQFIAGIGLTENSKNIESILEEGLEQNELEKLLNKSDISQENNNSI 124
+SP E + F G + E L+ GL L + + D +
Sbjct: 4 VSPAEKAKYDEIFLKTDKDMDGFVSGLEVREIFLKTGLPSTLLAHIWSLCDT---KDCGK 60
Query: 125 WD--------HLKETDPGVIADFLSKEHPQTTAYVLSMMPPS 158
HL I+ L K M+PPS
Sbjct: 61 LSKDQFALAFHL-------ISQKLIKGIDPPHVLTPEMIPPS 95
>2nov_A DNA topoisomerase 4 subunit A; protein, PARC, TOPO IV,
GRAM-positive bacteria, quinolone target, DNA binding,
DNA cleavage; HET: DNA; 2.67A {Streptococcus pneumoniae}
PDB: 3foe_A* 3fof_A*
Length = 496
Score = 27.3 bits (60), Expect = 5.6
Identities = 6/28 (21%), Positives = 14/28 (50%)
Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77
A L I+ + + + +EL ++ +F
Sbjct: 447 AMLAAIIGDERTMYNLMKKELREVKKKF 474
>2wtl_A Bacterioferritin, BFR; metal binding protein, bacterioferritin A,
heme, iron, biliverdin, iron storage, metal-binding;
HET: UNL; 2.59A {Mycobacterium tuberculosis} PDB:
3bkn_A*
Length = 173
Score = 27.3 bits (60), Expect = 5.7
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 32 LLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQF--IAGIGL 87
LA+E V +L K+ SA LL +I +E E+ ID E+Q + +G
Sbjct: 94 DLAIEYDVLNRLKPGIVMCREKQDTTSAVLLEKIVADE-EEHIDYLETQLELMDKLGE 150
>2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA
topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus
aureus} PDB: 2xcr_B* 2xcq_A* 2xco_A*
Length = 692
Score = 27.2 bits (60), Expect = 5.9
Identities = 10/28 (35%), Positives = 19/28 (67%)
Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77
+EL+ I+A ++L ++ +EL +I D F
Sbjct: 654 SELETILADEEVLLQLVRDELTEIRDRF 681
>2zu2_A 3C-like proteinase; protease-inhibitor complex, cytoplasm,
hydrolase, membrane, metal-binding, protease, ribosomal
frameshifting; 1.80A {Human coronavirus 229E} PDB:
1p9s_A
Length = 302
Score = 27.1 bits (60), Expect = 5.9
Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 4/41 (9%)
Query: 253 DDLITLSSHDLSIVFNNISLEVLGKALHGT----SIETQNA 289
+ + H+ SI+ L V+G +HG + N
Sbjct: 55 HEYSIMRLHNFSIISGTAFLGVVGATMHGVTLKIKVSQTNM 95
>2ex0_A A2,3-sialyltransferase, A2,6-sialyltransferase; two rossman fold;
1.65A {Pasteurella multocida} SCOP: c.87.1.9 PDB:
2ihj_A* 2ihk_A* 2ihz_A* 2iiq_A* 2ilv_A* 2ii6_A* 2iib_A*
2ex1_A* 2c83_A 2iy7_A* 2c84_A* 2iy8_A*
Length = 399
Score = 27.1 bits (60), Expect = 6.2
Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 4/59 (6%)
Query: 217 NLINELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDLITLSSHDLSIVFNNISLEVL 275
NL+N + + D + + + K P+ +D I ++ +++ + NIS EVL
Sbjct: 262 NLLNHFTQAEGDLFIGD----HYKIYFKGHPRGGEINDYILNNAKNITNIPANISFEVL 316
>1lvo_A Replicase, hydrolase domain; 3C like, corona, proteinase,
chymotrypsin, cysteine histidine DYAD, beta barrel;
1.96A {Transmissible gastroenteritis virus} SCOP:
b.47.1.4 PDB: 1p9u_A 2amp_A*
Length = 302
Score = 27.1 bits (60), Expect = 6.3
Identities = 8/41 (19%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 253 DDLITLSSHDLSIVFNNISLEVLGKALHGT----SIETQNA 289
+++ ++ H+ S+ NN+ L V+ G + N
Sbjct: 55 NEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNP 95
>2wl2_A GYRA, DNA gyrase subunit A; isomerase, aminocoumarin antibiotic,
drug target, protein-ligand complex; HET: DNA SM8; 2.62A
{Escherichia coli} PDB: 1ab4_A 1x75_A*
Length = 522
Score = 27.2 bits (60), Expect = 6.3
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77
AEL I+ SA L E+ EELE + ++F
Sbjct: 485 AELLRILGSADRLMEVIREELELVREQF 512
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter
baumannii} PDB: 2xkk_A*
Length = 767
Score = 26.9 bits (59), Expect = 6.3
Identities = 6/28 (21%), Positives = 15/28 (53%)
Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77
A ++E + + + L + EL++ +F
Sbjct: 713 AIIREQLENPESLKNLIISELKEDAKKF 740
>3kts_A Glycerol uptake operon antiterminator regulatory protein;
structural genomics, PSI-2, protein structure
initiative; HET: UNL; 2.75A {Listeria monocytogenes str}
Length = 192
Score = 26.9 bits (60), Expect = 6.8
Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 61 LLPEISPEELEDIIDEFESQFIAGIGLTENSKNIESILEEG 101
LLP I PE+++ + + IAG GL E S+ + ++ G
Sbjct: 133 LLPGIIPEQVQKMTQKLHIPVIAG-GLIETSEQVNQVIASG 172
>3ilw_A DNA gyrase subunit A; DNA topology, topoisomerase, antibiotic
resistance, breakage-reunion domain, structural
genomics; HET: DNA; 1.60A {Mycobacterium tuberculosis}
Length = 470
Score = 26.9 bits (59), Expect = 7.0
Identities = 9/28 (32%), Positives = 17/28 (60%)
Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77
A+L++I+A + I +EL +I+D
Sbjct: 433 ADLEDILAKPERQRGIVRDELAEIVDRH 460
>2inr_A DNA topoisomerase 4 subunit A; topoisomerase II fold; HET: DNA;
2.80A {Staphylococcus aureus}
Length = 514
Score = 26.5 bits (58), Expect = 8.5
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77
+L+ I+ + L + EEL +I +F
Sbjct: 471 KQLRHILDNHDALLNVIKEELNEIKKKF 498
>3ip4_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B; multi
protein complex, ligase, ATP-binding, nucleotide-
binding; 1.90A {Staphylococcus aureus subsp} PDB: 2df4_B
2dqn_B* 2g5h_B 2g5i_B* 2f2a_B
Length = 483
Score = 26.5 bits (58), Expect = 8.7
Identities = 12/66 (18%), Positives = 24/66 (36%), Gaps = 6/66 (9%)
Query: 17 ISPVSLTQKDKATAILLAMEKQVSGKLLRHF------THAELKEIVASAKLLPEISPEEL 70
+ LT ++ A I L + +S K+ + K+I+ L+ L
Sbjct: 359 LLDTKLTPENLAGMIKLIEDGTMSSKIAKKVFPELAAKGGNAKQIMEDNGLVQISDEATL 418
Query: 71 EDIIDE 76
++E
Sbjct: 419 LKFVNE 424
>3iyd_C DNA-directed RNA polymerase subunit beta; transcription,
initiation, class I, activator, RNA polymerase,
holoenzyme, sigma70, open complex, CAP, CRP,
CAMP-dependent; HET: DNA CMP; 19.80A {Escherichia coli
k-12}
Length = 1342
Score = 26.6 bits (58), Expect = 9.4
Identities = 20/136 (14%), Positives = 50/136 (36%), Gaps = 8/136 (5%)
Query: 2 NKTTDTVSFKNLYKEISPVSLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKL 61
NK + + L E + + K + + ++++ + +R ++K I +
Sbjct: 235 NKLQMELVPERLRGETASFDIEANGK---VYVEKGRRITARHIRQLEKDDVKLIEVPVEY 291
Query: 62 LPEISPEELEDIIDEFESQFIAGIGLTENSKNIESILEEGLEQNELEKLLNKSDISQENN 121
+ +D IDE + I + + + + + G ++ E L +D+
Sbjct: 292 I--AGKVVAKDYIDESTGELICAANMELSLDLLAKLSQSGHKRIE---TLFTNDLDHGPY 346
Query: 122 NSIWDHLKETDPGVIA 137
S + T+ + A
Sbjct: 347 ISETLRVDPTNDRLSA 362
>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A
{Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB:
1j8y_F
Length = 297
Score = 26.2 bits (57), Expect = 9.9
Identities = 10/44 (22%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 87 LTENSKNIESILEEGLEQNELEKLLNKSDISQENNNSIWDHLKE 130
S + + +E+ ++ EL+K L +D++ + S+ + +KE
Sbjct: 14 FLTGSSSYDKAVEDFIK--ELQKSLISADVNVKLVFSLTNKIKE 55
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.312 0.130 0.346
Gapped
Lambda K H
0.267 0.0503 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,733,718
Number of extensions: 126662
Number of successful extensions: 613
Number of sequences better than 10.0: 1
Number of HSP's gapped: 597
Number of HSP's successfully gapped: 70
Length of query: 345
Length of database: 5,693,230
Length adjustment: 93
Effective length of query: 252
Effective length of database: 3,438,538
Effective search space: 866511576
Effective search space used: 866511576
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (26.3 bits)