RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13351
(837 letters)
>3r8n_B 30S ribosomal protein S2; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2ykr_B 3fih_B* 2wwl_B 3oar_B 3oaq_B 3ofb_B
3ofa_B 3ofp_B 3ofx_B 3ofy_B 3ofo_B 3r8o_B 4a2i_B 3i1m_B
1vs7_B* 3e1a_B 3e1c_B 1vs5_B 3i1o_B 3i1q_B ...
Length = 218
Score = 368 bits (947), Expect = e-123
Identities = 104/218 (47%), Positives = 154/218 (70%)
Query: 1 MLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKGTLL 60
ML+AGVHFGHQTR+WNPKM +IFG RNK+HIINLEKT+ M+ +A+ + ++ KG +L
Sbjct: 1 MLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKIASRKGKIL 60
Query: 61 FVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIRK 120
FVGTKR A + + A+ F++ RWLGG+LTN+KT++ SI+RLK+++ +G+ K
Sbjct: 61 FVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQSQDGTFDK 120
Query: 121 LSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVVD 180
L+KKEAL+ R+ KL +GGIK+M +PDA+F+ID + A+ EA L IP+ +VD
Sbjct: 121 LTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLGIPVFAIVD 180
Query: 181 TNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKT 218
TN PDG+++VIPGNDD+ +++ LY + + ++
Sbjct: 181 TNSDPDGVDFVIPGNDDAIRAVTLYLGAVAATVREGRS 218
>2vqe_B 30S ribosomal protein S2; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} SCOP: c.23.15.1 PDB: 1gix_E*
1hnw_B* 1hnx_B* 1hnz_B* 1hr0_B 1ibk_B* 1ibl_B* 1ibm_B
1j5e_B 1jgo_E* 1jgp_E* 1jgq_E* 1ml5_E* 1n32_B* 1n33_B*
1n34_B 1n36_B 1xmo_B* 1xmq_B* 1xnq_B* ...
Length = 256
Score = 366 bits (942), Expect = e-122
Identities = 102/232 (43%), Positives = 149/232 (64%)
Query: 1 MLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKGTLL 60
+LEAGVHFGH+ + WNPK + YI+ RN IHII+L+KT+ E+ R+I L GT+L
Sbjct: 10 LLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLAMRGGTIL 69
Query: 61 FVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIRK 120
FVGTK+QA+ ++ EA RAGMP+++QRWLGG+LTNFKTI + RL+E++ + I +
Sbjct: 70 FVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEE 129
Query: 121 LSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVVD 180
KKE + + +L + + G + + +PDAIF++D AV EA KL IP+I + D
Sbjct: 130 RPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFIPVIALAD 189
Query: 181 TNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIME 232
T+ PD ++Y+IPGNDD+ +SI L VD + A+ S + A + E
Sbjct: 190 TDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQARGGVVEPSPSYALVQE 241
>3bbn_B Ribosomal protein S2; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 231
Score = 361 bits (929), Expect = e-120
Identities = 83/217 (38%), Positives = 125/217 (57%)
Query: 1 MLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKGTLL 60
M+EAGVHFGH TR WNP+MS YI IHIINL +T +A ++ L
Sbjct: 9 MMEAGVHFGHGTRKWNPRMSPYISAKCKGIHIINLTRTARFLSEACDLVFDASSRGKQFL 68
Query: 61 FVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIRK 120
VGTK +A +A A+RA +++++WLGG+LTN+ T +T + + +++ + T G + +
Sbjct: 69 IVGTKNKAADSVARAAIRARCHYVNKKWLGGMLTNWSTTETRLHKFRDLRMEQTAGRLAR 128
Query: 121 LSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVVD 180
L K++A + R+ L +GGIK M +PD + I+D A+ E I L IP I ++D
Sbjct: 129 LPKRDAAVVKRQLSHLQTYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGIPTICLID 188
Query: 181 TNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 217
TN +PD + IP NDD+ SI L +V A + +
Sbjct: 189 TNCNPDLADISIPANDDAIASIRLILTKLVFAICEGR 225
>2a1f_A Uridylate kinase; PYRH, structural genomics, PSI, protein ST
initiative, NEW YORK SGX research center for structural
GEN nysgxrc; 2.10A {Haemophilus influenzae} SCOP:
c.73.1.3 PDB: 2bne_A* 2bnf_A* 2v4y_A* 2bnd_A*
Length = 247
Score = 243 bits (621), Expect = 8e-75
Identities = 103/224 (45%), Positives = 153/224 (68%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 484
GEAL D I+ +I+ + EI E+V G+E+++V+GGGN+ RG ++R D
Sbjct: 17 GEALQGEDGLGIDPAILDRMAVEIKELVEMGVEVSVVLGGGNLFRGAKLAKAGMNRVVGD 76
Query: 485 YMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGG 544
+MGMLAT++N LA+ D L ++ + + +MSA + ++Y AIK L E +VVIF+ G
Sbjct: 77 HMGMLATVMNGLAMRDSLFRADVNAKLMSAFQLNGICDTYNWSEAIKMLREKRVVIFSAG 136
Query: 545 IGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKL 604
GNPFFTTD+TA LR EI+A+++LKATKVDG+Y+ DP K A +YK +++ EVI K+L
Sbjct: 137 TGNPFFTTDSTACLRGIEIEADVVLKATKVDGVYDCDPAKNPDAKLYKNLSYAEVIDKEL 196
Query: 605 EIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLVYE 648
++MD +AF+ RD +PIRVF++ K GAL++V+ G EGT + E
Sbjct: 197 KVMDLSAFTLARDHGMPIRVFNMGKPGALRQVVTGTEEGTTICE 240
>3ek6_A Uridylate kinase; UMPK unique GTP B site, allosteric regulation,
ATP-binding, nucleotid binding, pyrimidine biosynthesis,
transferase; 2.34A {Xanthomonas campestris PV} PDB:
3ek5_A
Length = 243
Score = 242 bits (620), Expect = 8e-75
Identities = 111/222 (50%), Positives = 148/222 (66%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 484
GEALM Y I+ +I + E+ E G ++A+VIGGGNI RG +DR T D
Sbjct: 18 GEALMGDGDYGIDPKVINRLAHEVIEAQQAGAQVALVIGGGNIFRGAGLAASGMDRVTGD 77
Query: 485 YMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGG 544
+MGMLAT+IN+LA+ D L K G VMSAI I E +I AI++LE+G++ IFA G
Sbjct: 78 HMGMLATVINALAMQDALEKLGAKVRVMSAIKINDVCEDFIRRRAIRHLEKGRIAIFAAG 137
Query: 545 IGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKL 604
GNPFFTTD+ AALRA EI A+++LKATKVDG+Y+ DP K A+ Y +T+DEVI + L
Sbjct: 138 TGNPFFTTDSGAALRAIEIGADLLLKATKVDGVYDKDPKKHSDAVRYDSLTYDEVIMQGL 197
Query: 605 EIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 646
E+MD+ AF+ RD LP+R+F + + G L R++ G GTLV
Sbjct: 198 EVMDTAAFALARDSDLPLRIFGMSEPGVLLRILHGAQIGTLV 239
>1ybd_A Uridylate kinase; alpha/beta/alpha fold, hexamer, structural
genomics, structure initiative, PSI; 2.60A {Neisseria
meningitidis} SCOP: c.73.1.3
Length = 239
Score = 239 bits (610), Expect = 2e-73
Identities = 123/223 (55%), Positives = 166/223 (74%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 484
GE+LM D + IN I + EI+E+V G+++ IV+GGGNI RG+S + ++DR+TAD
Sbjct: 16 GESLMGSDPFGINHDTIVQTVGEIAEVVKMGVQVGIVVGGGNIFRGVSAQAGSMDRATAD 75
Query: 485 YMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGG 544
YMGM+AT++N+LAL D GI + V SA+S+++ E+Y AI+YLEEGKVVIFA G
Sbjct: 76 YMGMMATVMNALALKDAFETLGIKARVQSALSMQQIAETYARPKAIQYLEEGKVVIFAAG 135
Query: 545 IGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKL 604
GNPFFTTDT AALR AE+ +++LKAT VDG+Y +DP K SA Y+ ITFDE + K L
Sbjct: 136 TGNPFFTTDTAAALRGAEMNCDVMLKATNVDGVYTADPKKDPSATRYETITFDEALLKNL 195
Query: 605 EIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLVY 647
++MD+TAF+ CR++KL I VF I K G+LKRVI G++EGTLV+
Sbjct: 196 KVMDATAFALCRERKLNIVVFGIAKEGSLKRVITGEDEGTLVH 238
>3nwy_A Uridylate kinase; allosterically activated form, AAK fold, UMP
kinase, transfe; HET: GTP UDP; 2.54A {Mycobacterium
tuberculosis}
Length = 281
Score = 240 bits (614), Expect = 2e-73
Identities = 92/222 (41%), Positives = 146/222 (65%), Gaps = 1/222 (0%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 484
GE G ++ ++ + +I+++V G+++A+VIGGGN RG + ++R+ +D
Sbjct: 59 GEMFG-GGQVGLDPDVVAQVARQIADVVRGGVQIAVVIGGGNFFRGAQLQQLGMERTRSD 117
Query: 485 YMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGG 544
YMGML T++NSLAL D L K GI++ V +AI++ + E Y+PL A+++LE+G+VVIF G
Sbjct: 118 YMGMLGTVMNSLALQDFLEKEGIVTRVQTAITMGQVAEPYLPLRAVRHLEKGRVVIFGAG 177
Query: 545 IGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKL 604
+G P+F+TDTTAA RA EI A+++L A VDG++ DP A + ++ EV+ + L
Sbjct: 178 MGLPYFSTDTTAAQRALEIGADVVLMAKAVDGVFAEDPRVNPEAELLTAVSHREVLDRGL 237
Query: 605 EIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 646
+ D+TAFS C D +PI VF+++ G + R + G+ GTLV
Sbjct: 238 RVADATAFSLCMDNGMPILVFNLLTDGNIARAVRGEKIGTLV 279
>2va1_A Uridylate kinase; UMPK, transferase, pyrimidine biosynthesis, amino
acid kinase family; 2.50A {Ureaplasma parvum}
Length = 256
Score = 239 bits (610), Expect = 4e-73
Identities = 96/258 (37%), Positives = 153/258 (59%), Gaps = 6/258 (2%)
Query: 393 AAMKPIALSSDQIPKKIIEKEYSLAVLKAQQL-GEALMKGDAYNINSSIIKNIISEISEI 451
++ SS +P+ V+K + G L + D+ I+ I ++ +I +I
Sbjct: 3 SSHHHHHHSSGLVPRGSHMMRKQRIVIK---ISGACLKQNDSSIIDFIKINDLAEQIEKI 59
Query: 452 VSCGIELAIVIGGGNICRGISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHV 511
I ++IV+GGGNI RG K ++DR+ AD MGM+ATIIN LAL + LN + + V
Sbjct: 60 SKKYI-VSIVLGGGNIWRGSIAKELDMDRNLADNMGMMATIINGLALENALNHLNVNTIV 118
Query: 512 MSAISIEKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDTTAALRAAEIKAEIILKA 571
+SAI +K + N K +E+ +V+IF G G P+FTTD+ AA+RAAE ++ IIL
Sbjct: 119 LSAIKCDKLVHESSANNIKKAIEKEQVMIFVAGTGFPYFTTDSCAAIRAAETESSIILMG 178
Query: 572 TK-VDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKS 630
VDG+Y+SDP +A Y+ ITF+ +++ L++MD+TA + C++ + + VF+I K
Sbjct: 179 KNGVDGVYDSDPKINPNAQFYEHITFNMALTQNLKVMDATALALCQENNINLLVFNIDKP 238
Query: 631 GALKRVIEGKNEGTLVYE 648
A+ V+E KN+ T+V +
Sbjct: 239 NAIVDVLEKKNKYTIVSK 256
>4a7w_A Uridylate kinase; transferase; HET: GTP; 1.80A {Helicobacter
pylori} PDB: 4a7x_A*
Length = 240
Score = 237 bits (605), Expect = 1e-72
Identities = 104/224 (46%), Positives = 150/224 (66%), Gaps = 2/224 (0%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGIS-NKIQNIDRSTA 483
GEAL + + I+ ++ +I EI +V IE+ IVIGGGNI RG+S + I R++
Sbjct: 16 GEALAGDNQFGIDIHVLDHIAKEIKSLVENDIEVGIVIGGGNIIRGVSAAQGGIIRRTSG 75
Query: 484 DYMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAG 543
DYMGMLAT+IN++A+ + L G+ + V SAI I++ ESYI AI++LE+G+VVIF
Sbjct: 76 DYMGMLATVINAVAMQEALEHIGLDTRVQSAIEIKEICESYIYRKAIRHLEKGRVVIFGA 135
Query: 544 GIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKK 603
G GNPFFTTDT A LRA EI +++I+KATKVDGIY+ DPNK A +++++ +
Sbjct: 136 GTGNPFFTTDTAATLRAIEIGSDLIIKATKVDGIYDKDPNKFKDAKKLDTLSYNDALIGD 195
Query: 604 LEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEG-KNEGTLV 646
+E+MD TA S +D KLPI V ++ K G L +VI+ + ++V
Sbjct: 196 IEVMDDTAISLAKDNKLPIVVCNMFKKGNLLQVIKHQQGVFSMV 239
>1z9d_A Uridylate kinase, UK, UMP kinase; structural genomics, protein
structure initiative, NYSGXRC, PYRH, putative uridylate
kinase, PSI; 2.80A {Streptococcus pyogenes} SCOP:
c.73.1.3
Length = 252
Score = 235 bits (601), Expect = 6e-72
Identities = 94/223 (42%), Positives = 148/223 (66%), Gaps = 1/223 (0%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 484
GEAL I+ ++ I EI+E+ G+++A+VIGGGN+ RG +DR AD
Sbjct: 16 GEALAGEKGVGIDIPTVQAIAKEIAEVHVSGVQIALVIGGGNLWRGEPAADAGMDRVQAD 75
Query: 485 YMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGG 544
Y GML T++N+L + D L G+ + V +AI ++ E YI A+++LE+ ++V+F G
Sbjct: 76 YTGMLGTVMNALVMADSLQHYGVDTRVQTAIPMQNVAEPYIRGRALRHLEKNRIVVFGAG 135
Query: 545 IGNPFFTTDTTAALRAAEIKAEIILKAT-KVDGIYNSDPNKCLSAIIYKKITFDEVISKK 603
IG+P+F+TDTTAALRAAEI+A+ IL A VDG+YN+DP K +A+ + ++T EVI +
Sbjct: 136 IGSPYFSTDTTAALRAAEIEADAILMAKNGVDGVYNADPKKDANAVKFDELTHGEVIKRG 195
Query: 604 LEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 646
L+IMD+TA + D + + VF++ ++G ++RV+ G++ GT V
Sbjct: 196 LKIMDATASTLSMDNDIDLVVFNMNEAGNIQRVVFGEHIGTTV 238
>2ogx_B Molybdenum storage protein subunit beta; open alpha/beta structure,
metal binding protein; HET: ATP; 1.60A {Azotobacter
vinelandii}
Length = 270
Score = 235 bits (602), Expect = 8e-72
Identities = 41/229 (17%), Positives = 87/229 (37%), Gaps = 13/229 (5%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQ--NIDRST 482
G++++ + ++ EI +L I G G R + + +
Sbjct: 45 GQSVIDRGRAAVYP-----LVDEIVAARK-NHKLLIGTGAGTRARHLYSIAAGLGLPAGV 98
Query: 483 ADYMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFA 542
+G N+ L +L K GI + +S + + + K+ +
Sbjct: 99 LAQLGSSVADQNAAMLGQLLAKHGIPVVGGAGLSAVPLSLAEVNAVVFSGMPPYKLWMRP 158
Query: 543 GGIGN-PFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVIS 601
G P + TD L A + + ++ DG+Y ++P A +I+ DE+ +
Sbjct: 159 AAEGVIPPYRTDAGCFLLAEQFGCKQMIFVKDEDGLYTANPKTSKDATFIPRISVDEMKA 218
Query: 602 KKLE--IMDSTAFSFCRDQK--LPIRVFSIIKSGALKRVIEGKNEGTLV 646
K L I++ + + ++V + + G L R + G++ GT++
Sbjct: 219 KGLHDSILEFPVLDLLQSAQHVREVQVVNGLVPGNLTRALAGEHVGTII 267
>2jjx_A Uridylate kinase, UMP kinase; structural genomics, pyrimidine
biosynthesis, ATP-binding, nucleotide-binding, OPPF,
PYRH, cytoplasm; HET: ATP; 2.82A {Bacillus anthracis}
Length = 255
Score = 230 bits (587), Expect = 6e-70
Identities = 92/224 (41%), Positives = 136/224 (60%), Gaps = 2/224 (0%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 484
G AL + NS +++I +EI IV GIE++IVIGGGNI RG + IDR AD
Sbjct: 21 GGALADQTGNSFNSKRLEHIANEILSIVDLGIEVSIVIGGGNIFRGHLAEEWGIDRVEAD 80
Query: 485 YMGMLATIINSLALFDIL-NKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAG 543
+G L TIINSL L +L +K+ VM++I E YI L A+ +L+ G +VIF G
Sbjct: 81 NIGTLGTIINSLMLRGVLTSKTNKEVRVMTSIPFNAVAEPYIRLRAVHHLDNGYIVIFGG 140
Query: 544 GIGNPFFTTDTTAALRAAEIKAEIILKATK-VDGIYNSDPNKCLSAIIYKKITFDEVISK 602
G G PF TTD + RA E+ ++ IL A + VDG++ SDP SA +Y+K+ +++V+ +
Sbjct: 141 GNGQPFVTTDYPSVQRAIEMNSDAILVAKQGVDGVFTSDPKHNKSAKMYRKLNYNDVVRQ 200
Query: 603 KLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 646
+++MD A RD LP VF+ + G ++R+ G++ GTL+
Sbjct: 201 NIQVMDQAALLLARDYNLPAHVFNFDEPGVMRRICLGEHVGTLI 244
>1eh1_A Ribosome recycling factor; translation, hinge variability; 2.60A
{Thermus thermophilus} SCOP: d.67.3.1 PDB: 2qbe_6 2qbg_6
2qbi_6* 2qbk_6* 2v46_Y* 2v48_Y* 2z4l_6* 2z4n_6* 3j0d_J
3j0e_G
Length = 185
Score = 225 bits (577), Expect = 2e-69
Identities = 72/184 (39%), Positives = 126/184 (68%)
Query: 652 MIISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITL 711
M + ++ T+ M ++++L+ NL +RTGRAN +L +++V+Y+ L +IA +T
Sbjct: 1 MTLKELYAETRSHMQKSLEVLEHNLAGLRTGRANPALLLHLKVEYYGAHVPLNQIATVTA 60
Query: 712 FNSHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKN 771
+ T+ +Q +++ I+KAI +++LGLNP+ +G+ +Y++IPPLT+ERR+++V+ ++
Sbjct: 61 PDPRTLVVQSWDQNALKAIEKAIRDSDLGLNPSNKGDALYINIPPLTEERRKDLVRAVRQ 120
Query: 772 ITEETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKE 831
EE +++IR IRR++ + LKKL K LS D RA+ +IQK+TD+FI + +QL KE
Sbjct: 121 YAEEGRVAIRNIRREALDKLKKLAKELHLSEDETKRAEAEIQKITDEFIAKADQLAEKKE 180
Query: 832 KEIL 835
+EIL
Sbjct: 181 QEIL 184
>1is1_A Ribosome recycling factor; translation; 2.20A {Vibrio
parahaemolyticus} SCOP: d.67.3.1 PDB: 3r8n_Y
Length = 185
Score = 224 bits (574), Expect = 8e-69
Identities = 79/183 (43%), Positives = 132/183 (72%)
Query: 654 ISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFN 713
I++IKK+ +++M +++ LK NL KVRTGRA+ +L I V+Y+ T L ++AN+ +
Sbjct: 2 INEIKKDAQERMDKSVEALKNNLSKVRTGRAHPSLLSGISVEYYGAATPLNQVANVVAED 61
Query: 714 SHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNIT 773
+ T++I F+KE++ ++KAI ++LGLNP G II V +PPLT+ERR+++VK+++
Sbjct: 62 ARTLAITVFDKELTQKVEKAIMMSDLGLNPMSAGTIIRVPLPPLTEERRKDLVKIVRGEA 121
Query: 774 EETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKE 833
E ++++R IRRD+N +LK LLK+K +S D + +AQ +IQKLTD + +I+++L KEKE
Sbjct: 122 EGGRVAVRNIRRDANNDLKALLKDKEISEDEDRKAQEEIQKLTDVAVKKIDEVLAAKEKE 181
Query: 834 ILT 836
++
Sbjct: 182 LME 184
>4gfq_A Ribosome-recycling factor; structural genomics, niaid, national
institute of allergy AN infectious diseases; 2.65A
{Bacillus anthracis}
Length = 209
Score = 225 bits (576), Expect = 8e-69
Identities = 73/190 (38%), Positives = 120/190 (63%), Gaps = 1/190 (0%)
Query: 647 YEIYIMIISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKI 706
++ M + K + +KM + L VR GRA+ +LD +QV Y+ T ++++
Sbjct: 20 FQSNAMG-QQVLKFSNEKMEKAVAAYSRELATVRAGRASASVLDKVQVDYYGAPTPVVQL 78
Query: 707 ANITLFNSHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIV 766
ANIT+ + + IQP++K I+KAI +A+LGLNP+ G +I ++ P LT+ERR ++V
Sbjct: 79 ANITVPEARLLVIQPYDKTSIGDIEKAILKADLGLNPSNDGTVIRIAFPALTEERRRDLV 138
Query: 767 KLIKNITEETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQL 826
K++K EE K+++R +RRD N++LKKL K ++ D+ DIQK TDK+I +++++
Sbjct: 139 KVVKKYAEEAKVAVRNVRRDGNDDLKKLEKAGEITEDDLRGYTEDIQKETDKYIAKVDEI 198
Query: 827 LINKEKEILT 836
NKEKEI+
Sbjct: 199 AKNKEKEIME 208
>1wqg_A Ribosome recycling factor; translation factor, triple-helix bundle,
protein synthesis, translation; 2.15A {Mycobacterium
tuberculosis} SCOP: d.67.3.1 PDB: 1wqf_A 1wqh_A
Length = 185
Score = 224 bits (573), Expect = 1e-68
Identities = 64/183 (34%), Positives = 111/183 (60%)
Query: 654 ISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFN 713
I + + ++KM + + +++L +RTGRAN GM I + Y+ T + ++A+I +
Sbjct: 2 IDEALFDAEEKMEKAVAVARDDLSTIRTGRANPGMFSRITIDYYGAATPITQLASINVPE 61
Query: 714 SHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNIT 773
+ + I+P+E I+ AI ++LG+NPT G +I V++P LT+ERR E+VK K+
Sbjct: 62 ARLVVIKPYEANQLRAIETAIRNSDLGVNPTNDGALIRVAVPQLTEERRRELVKQAKHKG 121
Query: 774 EETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKE 833
EE K+S+R IRR + E L ++ K D RA+ D+ K T +++ +I++L+ +KE E
Sbjct: 122 EEAKVSVRNIRRKAMEELHRIRKEGEAGEDEVGRAEKDLDKTTHQYVTQIDELVKHKEGE 181
Query: 834 ILT 836
+L
Sbjct: 182 LLE 184
>1ise_A Ribosome recycling factor; translation; 2.20A {Escherichia coli}
SCOP: d.67.3.1 PDB: 1ek8_A* 1zn0_A 1zn1_A 2rdo_8
Length = 185
Score = 223 bits (571), Expect = 2e-68
Identities = 73/182 (40%), Positives = 126/182 (69%)
Query: 654 ISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFN 713
ISDI+K+ + +M ++ K + K+RTGRA+ +LD I V+Y+ T L ++A++T+ +
Sbjct: 2 ISDIRKDAEVRMDKCVEAFKTQISKIRTGRASPSLLDGIVVEYYGTPTPLRQLASVTVED 61
Query: 714 SHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNIT 773
S T+ I F++ MS ++KAI ++LGLNP G+ I V +PPLT+ERR+++ K+++
Sbjct: 62 SRTLKINVFDRSMSPAVEKAIMASDLGLNPNSAGSDIRVPLPPLTEERRKDLTKIVRGEA 121
Query: 774 EETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKE 833
E+ ++++R + RD+N+ +K LLK+K +S D++ R+Q D+QKLTD I +I L +KE E
Sbjct: 122 EQARVAVRNVGRDANDKVKALLKDKEISEDDDRRSQDDVQKLTDAAIKKIEAALADKEAE 181
Query: 834 IL 835
++
Sbjct: 182 LM 183
>1dd5_A Ribosome recycling factor; three-helix bundle, beta-alpha-beta
sandwich; 2.55A {Thermotoga maritima} SCOP: d.67.3.1
PDB: 1t1m_C
Length = 185
Score = 223 bits (571), Expect = 2e-68
Identities = 68/182 (37%), Positives = 121/182 (66%)
Query: 654 ISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFN 713
++ K K+KM T++ +++ L+K+RTG+ + +L+ I+V Y+ T + ++A I++
Sbjct: 2 VNPFIKEAKEKMKRTLEKIEDELRKMRTGKPSPAILEEIKVDYYGVPTPVNQLATISISE 61
Query: 714 SHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNIT 773
T+ I+P++K + S+I+KAIN ++LGLNP GN+I + P T E+RE+ VK K I
Sbjct: 62 ERTLVIKPWDKSVLSLIEKAINASDLGLNPINDGNVIRLVFPSPTTEQREKWVKKAKEIV 121
Query: 774 EETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKE 833
EE KI+IR IRR+ + +K+ K ++ D+ R + +IQKLTD+FI +++++ K++E
Sbjct: 122 EEGKIAIRNIRREILKKIKEDQKEGLIPEDDAKRLENEIQKLTDEFIEKLDEVFEIKKEE 181
Query: 834 IL 835
I+
Sbjct: 182 IM 183
>2brx_A Uridylate kinase; UMP kinase, amino acid kinase, phosphoryl group
transfer, pyrimidine biosynthesis, transferase; 2.40A
{Pyrococcus furiosus} SCOP: c.73.1.3 PDB: 2ji5_A*
2bmu_A* 2bri_A*
Length = 244
Score = 223 bits (570), Expect = 2e-67
Identities = 57/233 (24%), Positives = 102/233 (43%), Gaps = 29/233 (12%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISN--KIQNIDRST 482
G L+ + N + IK I +++++ E+A+V+GGG + R + N +
Sbjct: 28 GSVLV-PE--NPDIDFIKEIAYQLTKVSE-DHEVAVVVGGGKLARKYIEVAEKFNSSETF 83
Query: 483 ADYMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFA 542
D++G+ T N++ L L + V A K ++ K+ +
Sbjct: 84 KDFIGIQITRANAMLLIAALREKAYPVVVED------------FWEAWKAVQLKKIPVMG 131
Query: 543 GGIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVI-- 600
G +P TTD AAL A +KA++++ T VDG+Y +DP K +A KK+ +E++
Sbjct: 132 GT--HPGHTTDAVAALLAEFLKADLLVVITNVDGVYTADPKKDPTAKKIKKMKPEELLEI 189
Query: 601 -------SKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 646
+ ++D A + V + L RVI+G + GT +
Sbjct: 190 VGKGIEKAGSSSVIDPLAAKIIARSGIKTIVIGKEDAKDLFRVIKGDHNGTTI 242
>2j4j_A Uridylate kinase; transferase, nucleoside monophosphate kinase, UMP
kinase, aspartokinase fold, pyrimidine nucleotide
synthesis; HET: U5P ACP 4TC; 2.1A {Sulfolobus
solfataricus} PDB: 2j4k_A* 2j4l_A*
Length = 226
Score = 222 bits (568), Expect = 2e-67
Identities = 45/234 (19%), Positives = 87/234 (37%), Gaps = 31/234 (13%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISN--KIQNIDRST 482
G+ + + + + I E+ G + IV GGG+ R + I +
Sbjct: 9 GKFFDEDNV-----DNLIVLRQSIKELADNGFRVGIVTGGGSTARRYIKLAREIGIGEAY 63
Query: 483 ADYMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFA 542
D +G+ A+ +N+ + L + I+ GKVV+
Sbjct: 64 LDLLGIWASRLNAYLVMFSLQDLAYMHVP------------QSLEEFIQDWSHGKVVVTG 111
Query: 543 GGIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDE---- 598
G P +T AAL A ++ ++ AT VDG+Y DP + +T +
Sbjct: 112 GF--QPGQSTAAVAALVAEASSSKTLVVATNVDGVYEKDPRIYADVKLIPHLTTQDLRKI 169
Query: 599 ------VISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 646
V + E++D A K+ + V + K + +++G+ +++
Sbjct: 170 LEGSQSVQAGTYELLDPLAIKIVERSKIRVIVMNYRKLNRIIDILKGEEVSSII 223
>2ij9_A Uridylate kinase; structural genomics, protein structure
initiative, P nysgxrc; 2.90A {Archaeoglobus fulgidus}
SCOP: c.73.1.3
Length = 219
Score = 208 bits (532), Expect = 2e-62
Identities = 50/233 (21%), Positives = 96/233 (41%), Gaps = 34/233 (14%)
Query: 425 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISN--KIQNIDRST 482
G L ++ I+ I + ++ +V+GGG + R + +
Sbjct: 9 GSVLS-NES-----EKIREFAKTIESVAQQN-QVFVVVGGGKLAREYIKSARELGASETF 61
Query: 483 ADYMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFA 542
DY+G+ AT +N++ L + + + A + + +VV+
Sbjct: 62 CDYIGIAATRLNAMLLISAIPSAAK-------------KVPVDFMEAEELSKLYRVVVMG 108
Query: 543 GGIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISK 602
G P TTD TAAL A IKA++ + AT VDG+Y++DP SA+ Y +++ +++
Sbjct: 109 GT--FPGHTTDATAALLAEFIKADVFINATNVDGVYSADPKSDTSAVKYDRLSPQQLVEI 166
Query: 603 ---------KLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 646
++D A K+ V + + ++G+ GT++
Sbjct: 167 VSRSSAKAGTNVVIDLLAAKIIERSKIKTYVIL-GTPENIMKAVKGEAVGTVI 218
>1ge9_A Ribosome recycling factor; three-helix bundle; NMR {Aquifex
aeolicus} SCOP: d.67.3.1
Length = 184
Score = 207 bits (528), Expect = 3e-62
Identities = 69/183 (37%), Positives = 118/183 (64%), Gaps = 4/183 (2%)
Query: 654 ISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFN 713
+ DI K ++ M ++ K + +RT RA+ +++ I+V+Y+ + ++ I++
Sbjct: 5 LEDIFKEAEKDMKKAVEYYKNEIAGLRTSRASTALVEEIKVEYYGSKVPIKQLGTISVPE 64
Query: 714 SHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNIT 773
+ I IQ +++ I+KAI L LNPT+QGN+I V++PPLT+ERR E+V+L+ IT
Sbjct: 65 HNQIVIQVWDQNAVPAIEKAIR-EELNLNPTVQGNVIRVTLPPLTEERRRELVRLLHKIT 123
Query: 774 EETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKE 833
EE ++ +R +RR++ E +++L +S D + RA +QKLTDK+I EIN+L+ KEKE
Sbjct: 124 EEARVRVRNVRREAKEMIEELEG---ISEDEKKRALERLQKLTDKYIDEINKLMEAKEKE 180
Query: 834 ILT 836
I++
Sbjct: 181 IMS 183
>1xb2_B EF-TS, elongation factor TS, mitochondrial, EF-TSMT;
protein-protein complex, translation; HET: MSE; 2.20A
{Bos taurus} SCOP: a.5.2.2 d.43.1.1 d.43.1.1
Length = 291
Score = 204 bits (522), Expect = 4e-60
Identities = 52/235 (22%), Positives = 93/235 (39%), Gaps = 37/235 (15%)
Query: 215 DAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGKKILN----ISNRNAKDG 270
+ + +LR KT + CKKAL G L +AE L + K+ + + R K+G
Sbjct: 4 SKELLMKLRRKTGYSFINCKKALETCGGDLKQAESWLHKQAQKEGWSKAARLHGRKTKEG 63
Query: 271 VIAIYISEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTPINLDQLNNLK----- 325
+I + LVE+NCETDFV++N +F + +++A + DQL+
Sbjct: 64 LIGLLQEGDTTVLVEVNCETDFVSRNLKFQQLVQQVALGTLLHCQNLKDQLSTYSKGFLN 123
Query: 326 ---------IKNNLLTVDEKCKELISRIGENIKIRRFKLFKTNN--NLISYLHDN----- 369
++ ++ I ++GEN+ ++R K + SY+H
Sbjct: 124 SSELSELPAGPEREGSLKDQLALAIGKLGENMILKRAAWVKVPAGFYVGSYVHGAMHSPS 183
Query: 370 -------KIGVIVEYNGDNESAV-----KDVAMHIAAMKPIALSSDQIPKKIIEK 412
K G +V A + + H+ M P+++ S +
Sbjct: 184 LHNLVLGKYGALVICETSELKANLADLGRRLGQHVVGMAPLSVGSLDDEPGGEAE 238
>1vi6_A 30S ribosomal protein S2P; structural genomics, ribosome; 1.95A
{Archaeoglobus fulgidus} SCOP: c.23.15.1 PDB: 1vi5_A
Length = 208
Score = 191 bits (486), Expect = 4e-56
Identities = 42/218 (19%), Positives = 85/218 (38%), Gaps = 51/218 (23%)
Query: 1 MLEAGVHFGHQTRFWNPKMSSYIFGHR-NKIHIINLEKTLYMYEKAIRYIYQLGFSKGTL 59
L AGVH G Q + + M +IF R + ++++++ K A +++ + + +
Sbjct: 16 YLAAGVHIGTQIKTGD--MKKFIFKVRQDGLYVLDIRKLDERIRVAAKFLSR--YEPSKI 71
Query: 60 LFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIR 119
L V ++ A + + G +I R++ G LTN
Sbjct: 72 LLVAARQYAHKPVQMFSKVVGSDYIVGRFIPGTLTNP----------------------- 108
Query: 120 KLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVV 179
+ + P+ +F+ D K AVSEA + IP++ +
Sbjct: 109 -----------------------MLSEYREPEVVFVNDPAIDKQAVSEATAVGIPVVALC 145
Query: 180 DTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 217
D+N+S ++ VIP N+ +++A+ + +
Sbjct: 146 DSNNSSADVDLVIPTNNKGRRALAIVYWLLAREIAKIR 183
>2xzm_B RPS0E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_B
Length = 241
Score = 185 bits (470), Expect = 2e-53
Identities = 49/233 (21%), Positives = 78/233 (33%), Gaps = 51/233 (21%)
Query: 1 MLEAGVHFGHQTRFWNPKMSSYIFGHR-NKIHIINLEKTLYMYEKAIRYIYQLGFSKGTL 59
+L + H T N +M YI N IH IN+E+T + A R I + + +
Sbjct: 13 LLASNCH--QATINLNNQMKRYISHKGVNGIHYINIEETWQKIKLAARVIAAVQHPEDVM 70
Query: 60 LFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIR 119
+ R I RW G LTN++T+K
Sbjct: 71 VVCSRIYGQRAAIKFAGYTHCKSTSSSRWTPGTLTNYQTLK------------------- 111
Query: 120 KLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVV 179
P + + D A+ EA +NIP+I +
Sbjct: 112 ---------------------------YEEPRVLIVTDPRSDFQAIKEASYVNIPVIALC 144
Query: 180 DTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIME 232
D++ ++ VIP N+ S +SI++ I + GEL +M
Sbjct: 145 DSDSPLAYVDVVIPCNNRSTESISMIYWMIAREVKILR--GELSKDEEWEVMV 195
>3u5c_A 40S ribosomal protein S0-A; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_A 3o30_A 3o2z_A 3u5g_A 3jyv_B* 1s1h_B
Length = 252
Score = 178 bits (453), Expect = 5e-51
Identities = 40/218 (18%), Positives = 71/218 (32%), Gaps = 50/218 (22%)
Query: 1 MLEAGVHFGHQTRFWNPKMSSYIFGHR-NKIHIINLEKTLYMYEKAIRYIYQLGFSKGTL 59
+L A H G + Y+F R + +H+IN+ KT A R I + + +
Sbjct: 17 LLAANTHLGARN--VQVHQEPYVFNARPDGVHVINVGKTWEKLVLAARIIAAIP-NPEDV 73
Query: 60 LFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIR 119
+ + ++ + + A G I R+ G TN+ T
Sbjct: 74 VAISSRTFGQRAVLKFAAHTGATPIAGRFTPGSFTNYITR-------------------- 113
Query: 120 KLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVV 179
P + + D A+ EA +NIP+I +
Sbjct: 114 --------------------------SFKEPRLVIVTDPRSDAQAIKEASYVNIPVIALT 147
Query: 180 DTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 217
D + + ++ IP N+ SI L + L +
Sbjct: 148 DLDSPSEFVDVAIPCNNRGKHSIGLIWYLLAREVLRLR 185
>2zkq_b 40S ribosomal protein SA; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 295
Score = 175 bits (445), Expect = 2e-49
Identities = 42/233 (18%), Positives = 78/233 (33%), Gaps = 52/233 (22%)
Query: 1 MLEAGVHFGHQTRFWNPKMSSYIFGHR-NKIHIINLEKTLYMYEKAIRYIYQLGFSKGTL 59
L AG H G + +M YI+ + + I+IINL++T A R I + + +
Sbjct: 18 FLAAGTHLGGTN--LDFQMEQYIYKRKSDGIYIINLKRTWEKLLLAARAIVAIE-NPADV 74
Query: 60 LFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIR 119
+ ++ + + A G I R+ G TN
Sbjct: 75 SVISSRNTGQRAVLKFAAATGATPIAGRFTPGTFTN------------------------ 110
Query: 120 KLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVV 179
I+ P + + D ++EA +N+P I +
Sbjct: 111 ----------------------QIQAAFREPRLLVVTDPRADHQPLTEASYVNLPTIALC 148
Query: 180 DTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIME 232
+T+ ++ IP N+ A S+ L + L + G + + +M
Sbjct: 149 NTDSPLRYVDIAIPCNNKGAHSVGLMWWMLAREVLRMR--GTISREHPWEVMP 199
>2ogx_A Molybdenum storage protein subunit alpha; open alpha/beta
structure, metal binding protein; HET: ATP; 1.60A
{Azotobacter vinelandii}
Length = 276
Score = 173 bits (440), Expect = 6e-49
Identities = 40/236 (16%), Positives = 80/236 (33%), Gaps = 34/236 (14%)
Query: 431 GDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISN--KIQNIDRSTADYMGM 488
G + + I ++ E+ +++ L I+ G G R + + + + +
Sbjct: 48 GRVMDRGADAILPLVEELRKLLP-EHRLLILTGAGVRARHVFSVGLDLGLPVGSLAPLAA 106
Query: 489 LATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAG----- 543
N L +L G+ + +L + V+ +
Sbjct: 107 SEAGQNGHILAAMLASEGV----------SYVEHPTVADQLAIHLSATRAVVGSAFPPYH 156
Query: 544 -----GIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCL--SAIIYKKITF 596
G P DT A L A A + VDGIY +DPN A + +
Sbjct: 157 HHEFPGSRIPPHRADTGAFLLADAFGAAGLTIVENVDGIYTADPNGPDRGQARFLPETSA 216
Query: 597 DEVISKK------LEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 646
++ + ++D A + + ++V + + G L + G++ GTL+
Sbjct: 217 TDLAKSEGPLPVDRALLDVMATARHIE---RVQVVNGLVPGRLTAALRGEHVGTLI 269
>3iz6_A 40S ribosomal protein SA (S2P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 305
Score = 167 bits (423), Expect = 3e-46
Identities = 46/260 (17%), Positives = 79/260 (30%), Gaps = 62/260 (23%)
Query: 1 MLEAGVHFGHQTRFWNPKMSSYIFGHR-NKIHIINLEKTLYMYEKAIRYIYQLGFSKGTL 59
ML A VH G + + +M Y++ R + I+IINL KT + A R I + + +
Sbjct: 22 MLAADVHLGTKN--CDFQMERYVYKRRTDGIYIINLGKTWEKLQLAARVIVAIE-NPQDI 78
Query: 60 LFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIR 119
+ + + + A G I R G TN
Sbjct: 79 IVQSARPYGQRAVLKFAQYTGAHAIAGRHTPGTFTN------------------------ 114
Query: 120 KLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVV 179
++ P + + D + E+ NIP I
Sbjct: 115 ----------------------QLQTSFSEPRLLILTDPRTDHQPIKESALGNIPTIAFC 152
Query: 180 DTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIM-------- 231
DT+ ++ IP N+ +SI + L + G + +M
Sbjct: 153 DTDSPMRYVDIGIPANNKGKQSIGCLFWLLARMVLQMR--GTILPGHKWDVMVDLFFYRD 210
Query: 232 --ECKKALIEANGKLSKAEE 249
E K+ E ++
Sbjct: 211 PEEAKEQEEEEAALVAPDYG 230
>3bch_A 40S ribosomal protein SA; laminin receptor, P40 ribosomal protein,
acetylation, cytoplasm, phosphorylation, polymorphism;
2.15A {Homo sapiens}
Length = 253
Score = 162 bits (410), Expect = 4e-45
Identities = 40/218 (18%), Positives = 73/218 (33%), Gaps = 50/218 (22%)
Query: 1 MLEAGVHFGHQTRFWNPKMSSYIFGHR-NKIHIINLEKTLYMYEKAIRYIYQLGFSKGTL 59
L AG H G + +M YI+ + + I+IINL++T A R I + + +
Sbjct: 51 FLAAGTHLGGTN--LDFQMEQYIYKRKSDGIYIINLKRTWEKLLLAARAIVAIE-NPADV 107
Query: 60 LFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIR 119
+ ++ + + A G I R+ G TN
Sbjct: 108 SVISSRNTGQRAVLKFAAATGATPIAGRFTPGTFTNQ----------------------- 144
Query: 120 KLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVV 179
I+ P + + D ++EA +N+P I +
Sbjct: 145 -----------------------IQAAFREPRLLVVTDPRADHQPLTEASYVNLPTIALC 181
Query: 180 DTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 217
+T+ ++ IP N+ A S+ L + L +
Sbjct: 182 NTDSPLRYVDIAIPCNNKGAHSVGLMWWMLAREVLRMR 219
>3lhp_S 4E10_D0_1ISEA_004_N (T93); epitope-scaffold, immune system; 2.70A
{Artificial gene} PDB: 1y69_8
Length = 123
Score = 145 bits (369), Expect = 4e-41
Identities = 30/121 (24%), Positives = 61/121 (50%), Gaps = 4/121 (3%)
Query: 715 HTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNITE 774
H SI K+ + KA+ L+ + P T+ER ++ +K+++ E
Sbjct: 5 HHGSISDIRKDAEVRMDKAVEAFKNKLDKF--KAAVRKVFP--TEERIKDWLKIVRGEAE 60
Query: 775 ETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKEI 834
+ ++++R + RD+N+ L K+K ++ + ++ +D+QKLTD I +I L + E +
Sbjct: 61 QARVAVRNVGRDANDKAAALGKDKEINWFDISQSLWDVQKLTDAAIKKIEAALADMEAWL 120
Query: 835 L 835
Sbjct: 121 T 121
>3lf9_A 4E10_D0_1IS1A_001_C (T161); epitope-scaffold, immune system; 2.00A
{Artificial gene}
Length = 121
Score = 134 bits (339), Expect = 4e-37
Identities = 33/118 (27%), Positives = 66/118 (55%), Gaps = 7/118 (5%)
Query: 719 IQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNITEETKI 778
I +K+ + K++ L+ G T+ERR+++VK+++ E ++
Sbjct: 2 INEIKKDAQERMDKSVEALKNNLSKVRTGG-------GGTEERRKDLVKIVRGEAEGGRV 54
Query: 779 SIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKEILT 836
++R I RD+ +L L K+K ++ + +A ++IQKLTD + +I+++L KEKE++
Sbjct: 55 AVRNIARDAANDLAALGKDKEVNWFDISQALWEIQKLTDVAVKKIDEVLAAKEKELME 112
>1aip_C EF-TS, elongation factor TS; nucleotide exchange, GTP-binding,
complex of two elongation factors; 3.00A {Thermus
thermophilus} SCOP: a.5.2.2 d.43.1.1
Length = 196
Score = 111 bits (279), Expect = 4e-28
Identities = 48/166 (28%), Positives = 85/166 (51%), Gaps = 8/166 (4%)
Query: 216 AKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGKKILNISNRNAKDGVIAIY 275
+ + +LR T A +M+ K+AL +A KA ++LR + K ++R A++G+I Y
Sbjct: 4 MELIKKLREATGAGMMDVKRALEDAGWDEEKAVQLLRERGAMKAAKKADREAREGIIGHY 63
Query: 276 ISE--KVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTP--INLDQLNNLKIKN--N 329
I +VG LVE+NCETDFVA+N F +K +A I P ++ +++ +++
Sbjct: 64 IHHNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAEEIPAEELEKERQ 123
Query: 330 LLTVDEKCKELISRIGENIKIRRFKLFKTNNNLIS--YLHDNKIGV 373
+ + +I E I R K + L+ ++ D+K+ V
Sbjct: 124 IYIQAALNEGKPQQIAEKIAEGRLKKYLEEVVLLEQPFVKDDKVKV 169
Score = 82.1 bits (203), Expect = 5e-18
Identities = 28/101 (27%), Positives = 49/101 (48%), Gaps = 10/101 (9%)
Query: 335 EKCKELISRIGENIKIRRFKLFKTNNNLISYLH-DNKIGVIVEYNGDNESA--------- 384
EK +L+ G ++ + Y+H + ++GV+VE N + +
Sbjct: 33 EKAVQLLRERGAMKAAKKADREAREGIIGHYIHHNQRVGVLVELNCETDFVARNELFQNL 92
Query: 385 VKDVAMHIAAMKPIALSSDQIPKKIIEKEYSLAVLKAQQLG 425
KD+AMHIA M P +S+++IP + +EKE + + A G
Sbjct: 93 AKDLAMHIAMMNPRYVSAEEIPAEELEKERQIYIQAALNEG 133
>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA
polymerase, translation, transferase-RNA complex; HET:
GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A*
3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G*
1efu_B
Length = 1289
Score = 115 bits (289), Expect = 2e-26
Identities = 82/219 (37%), Positives = 120/219 (54%), Gaps = 17/219 (7%)
Query: 212 AFLDAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILR----IKLGKKILNISNRNA 267
A + A V ELR +T A +M+CKKAL EANG + A E +R IK KK N+ A
Sbjct: 2 AEITASLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNV----A 57
Query: 268 KDGVIAIYISEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTPINLDQLNNLKIK 327
DGVI I G ++E+NC+TDFVAK+ F F+ K+ +++ L
Sbjct: 58 ADGVIKTKIDGNYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITDVEVLK----- 112
Query: 328 NNLLTVDEKCKELISRIGENIKIRRFKLFKTNNNLISYLHDNKIGVIVEYNGDNESAVKD 387
+E+ L+++IGENI IRR + + L SY H +IGV+V G +E VK
Sbjct: 113 ---AQFEEERVALVAKIGENINIRRVAALE-GDVLGSYQHGARIGVLVAAKGADEELVKH 168
Query: 388 VAMHIAAMKPIALSSDQIPKKIIEKEYSLAVLKAQQLGE 426
+AMH+AA KP + + + +++EKEY + + A Q G+
Sbjct: 169 IAMHVAASKPEFIKPEDVSAEVVEKEYQVQLDIAMQSGK 207
>3k4o_A Isopentenyl phosphate kinase; small molecule kinase, ATP-binding,
transferase, methanocald jannaschii, isopentenyl
monophosphate; 2.05A {Methanocaldococcus jannaschii}
PDB: 3k4y_A* 3k52_A* 3k56_A*
Length = 266
Score = 103 bits (258), Expect = 1e-24
Identities = 48/250 (19%), Positives = 88/250 (35%), Gaps = 30/250 (12%)
Query: 425 GEALM-KGDAYNINSSIIKNIISEISEIVSC------GIELAIVIGGGNICRGISNKIQN 477
G L K Y+I ++ I EI + I+L +V GGG ++ K
Sbjct: 15 GSILSDKNVPYSIKWDNLERIAMEIKNALDYYKNQNKEIKLILVHGGGAFGHPVAKKYLK 74
Query: 478 IDRSTADYMGMLATI---------INSLALFDILNKSGIISHVMSAISIEKFLESYIPLN 528
I+ ++ M N++ + + + + + + + +
Sbjct: 75 IEDGKKIFINMEKGFWEIQRAMRRFNNIIIDTLQSYDIPAVSIQPSSFVVFGDKLIFDTS 134
Query: 529 AIKYLEEGKVV-------IFAGGIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSD 581
AIK + + +V + G + D A E+KA++IL AT VDG+ +
Sbjct: 135 AIKEMLKRNLVPVIHGDIVIDDKNGYRIISGDDIVPYLANELKADLILYATDVDGVLIDN 194
Query: 582 PNKCLSAIIYKKITFDEVISKKLEIMDSTA-----FSFCRDQKLPIRVFSIIKSGALKRV 636
+ I I +D T R K VF+ K+ + +
Sbjct: 195 KP--IKRIDKNNIYKILNYLSGSNSIDVTGGMKYKIEMIRKNKCRGFVFNGNKANNIYKA 252
Query: 637 IEGKNEGTLV 646
+ G+ EGT +
Sbjct: 253 LLGEVEGTEI 262
>1wih_A Mitochondrial ribosome recycling factor; structural genomics, riken
structural genomics/proteomics initiative, RSGI, unknown
function; NMR {Mus musculus} SCOP: d.67.3.1
Length = 84
Score = 93.9 bits (234), Expect = 2e-23
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 1/83 (1%)
Query: 682 GRANIGMLDNIQVKYHEHLTKLLKIANITLFNSHTISIQPFE-KEMSSIIKKAINEANLG 740
G + LD+I V + L +I I++ + I + E ++ KAI E+ +
Sbjct: 1 GSSGSSGLDHITVVTADGKVALNQIGQISMKSPQVILVNMASFPECTAAAIKAIRESGMN 60
Query: 741 LNPTIQGNIIYVSIPPLTKERRE 763
LNP ++G +I V IP +T
Sbjct: 61 LNPEVEGTLIRVPIPKVTSGPSS 83
>1tfe_A Elongation factor TS; 1.70A {Thermus thermophilus} SCOP: d.43.1.1
Length = 145
Score = 68.5 bits (168), Expect = 8e-14
Identities = 24/72 (33%), Positives = 41/72 (56%), Gaps = 10/72 (13%)
Query: 364 SYLH-DNKIGVIVEYNGDN---------ESAVKDVAMHIAAMKPIALSSDQIPKKIIEKE 413
Y+H + ++GV+VE N + ++ KD+AMHIA M P +S+++IP + +EKE
Sbjct: 8 HYIHHNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAEEIPAEELEKE 67
Query: 414 YSLAVLKAQQLG 425
+ + A G
Sbjct: 68 RQIYIQAALNEG 79
Score = 56.5 bits (137), Expect = 1e-09
Identities = 41/139 (29%), Positives = 61/139 (43%), Gaps = 48/139 (34%)
Query: 267 AKDGVIAIYI--SEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTP--------- 315
A++G+I YI +++VG LVE+NCETDFVA+N F +K +A I P
Sbjct: 1 AREGIIGHYIHHNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAEEIP 60
Query: 316 ---------INLDQLNNL--------KI--------------------KNNLLTVDEKCK 338
I + N KI K++ + V E +
Sbjct: 61 AEELEKERQIYIQAALNEGKPQQIAEKIAEGRLKKYLEEVVLLEQPFVKDDKVKVKELIQ 120
Query: 339 ELISRIGENIKIRRFKLFK 357
+ I++IGENI +RRF F+
Sbjct: 121 QAIAKIGENIVVRRFCRFE 139
>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 = 69.9 bits (170), Expect = 3e-12
Identities = 84/578 (14%), Positives = 169/578 (29%), Gaps = 159/578 (27%)
Query: 31 HIINLEKTLYMYEKAIRYIYQLGFSKGTLL---FVGTKRQAR-----GVIANEAVRAGMP 82
HII + ++ SK + FV + I E + M
Sbjct: 53 HIIMSKDA----VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMM 108
Query: 83 ---FIDQRWLGGLLTN---------------FKTIKTSIQRLKEMDLFITNG------SI 118
+I+QR L N + ++ ++ L+ + +G +
Sbjct: 109 TRMYIEQR---DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW 165
Query: 119 RKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGV 178
++ + L Y+ Q K+ IF +++ + L ++
Sbjct: 166 --VA-LDVCLSYKVQCKM-------------DFKIFWLNLKNCNSPETVLEMLQ-KLLYQ 208
Query: 179 VDTNHS--PDGINYVIPGNDDSAKS------------IAL------YTKGIVDAF-LDAK 217
+D N + D I S ++ L +AF L K
Sbjct: 209 IDPNWTSRSDHS-SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK 267
Query: 218 TVGELRSKT----LAPIMECKKALIEANGKLSKAE--EILRIKLGKKILNISN----RNA 267
+ R K L+ +L + L+ E +L K L+ R
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL-----KYLDCRPQDLPREV 322
Query: 268 KDG---VIAIYISEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTPINLDQL--- 321
++I I+E S+ + D K+ K + I + P ++
Sbjct: 323 LTTNPRRLSI-IAE---SIRDGLATWDNW-KHVNCDKLTTIIESSLNVLEPAEYRKMFDR 377
Query: 322 -----NNLKIKNNLLTV-----DEKCKELISRIGENIKIRRFKLFKTNNNLISYLHDNKI 371
+ I LL++ + ++ N + + K +
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVMVV----VNKLHKYSLVEKQPKESTISIPS--- 430
Query: 372 GVIVEYNGDNESAVKDVAMHIAAMKPIALSSDQIPKKIIEKEYSLAVLKAQQLGEALMKG 431
+ +E E + A+H + I++ Y++
Sbjct: 431 -IYLELKVKLE---NEYALH---------------RSIVDH-YNIP-KTFDSDDLIPPYL 469
Query: 432 DAYNINSSI---IKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTADYMGM 488
D Y S I +KNI E E ++ + + + R + KI++ + +
Sbjct: 470 DQY-FYSHIGHHLKNI--EHPERMTLFRMVFL-----DF-RFLEQKIRHDSTAWNASGSI 520
Query: 489 LATIINSLALFD--ILNKSGIISHVMSAISIEKFLESY 524
L T+ L + I + +++A I FL
Sbjct: 521 LNTLQQ-LKFYKPYICDNDPKYERLVNA--ILDFLPKI 555
Score = 65.3 bits (158), Expect = 7e-11
Identities = 99/688 (14%), Positives = 208/688 (30%), Gaps = 171/688 (24%)
Query: 196 DDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKL 255
D K I+ F DA +CK LSK EEI
Sbjct: 8 DFETGEHQYQYKDILSVFEDA----------FVDNFDCKDVQDMPKSILSK-EEI----- 51
Query: 256 GKKILNISNRNAKDGVIAIYISEKVGSLVEINCETDFVAKNNEFIKFS-KKIAKLITENT 314
I+ + + + + K +V+ E + + N +F+ K + + T
Sbjct: 52 -DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVE-EVLRINYKFLMSPIKTEQRQPSMMT 109
Query: 315 PINLDQLNNLKIKNNLLTVDEKCKELISRIGENIKIRRFKLFKTNNNLISYLHDNKIGVI 374
+ ++Q + L N + K +SR+ +K+R+ L + L K V+
Sbjct: 110 RMYIEQRDRLYNDNQVFA-----KYNVSRLQPYLKLRQ-ALLE--------LRPAK-NVL 154
Query: 375 VEYNGDN--------ESAVKDVAMHIAAMKPI---ALSSDQIPKKIIEKEYSLAVLKAQQ 423
++ G + I L + P+ ++E L
Sbjct: 155 ID--GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 424 LGEALMKGDAYNINSSIIKNIISEI---SEIVSCGIELAIVIGGGNICRGISNKIQNIDR 480
+ I+ + + +C L ++ N+ +
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC---LLVL---LNVQ----------NA 256
Query: 481 STADYMG----MLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEG 536
+ +L T + D L+ + + IS++ + P +E
Sbjct: 257 KAWNAFNLSCKILLTTRFK-QVTDFLS-----AATTTHISLDHHSMTLTP-------DEV 303
Query: 537 KVVIFAGGIGNPFFT----TDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYK 592
K + + TT R + I I DG+ D +K
Sbjct: 304 KS-LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR------DGLATWDN--------WK 348
Query: 593 KITFD---EVISKKLEIMDST-------AFS-FCRDQKLPIRVFSIIKSGALKRVIEGKN 641
+ D +I L +++ S F +P + S+I +K +
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM--- 405
Query: 642 EGTLVYEIYIMIISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLT 701
++++ + K L +++ K+ + +I ++ L
Sbjct: 406 ----------VVVNKLHK----YSL-----VEKQPKESTIS------IPSIYLELKVKLE 440
Query: 702 KLLKIANITLFNSHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPP-LTKE 760
+ H + + I K ++ L P Y I L
Sbjct: 441 NEYAL--------HRSIVDHYN-----IPKTFDSD---DLIPPYLDQYFYSHIGHHLKNI 484
Query: 761 RREEIVKLIKNITEETKISIRKIRRD-SNENLKKLLKNKILSVDNEYR-------AQYDI 812
E + L + + + + +KIR D + N + N + + Y+ +Y+
Sbjct: 485 EHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKF-YKPYICDNDPKYE- 542
Query: 813 QKLTD--KFILEINQ-LLINKEKEILTL 837
+ + F+ +I + L+ +K ++L +
Sbjct: 543 RLVNAILDFLPKIEENLICSKYTDLLRI 570
Score = 48.7 bits (115), Expect = 8e-06
Identities = 105/669 (15%), Positives = 204/669 (30%), Gaps = 181/669 (27%)
Query: 106 LKEMDLFITNGSIRK-LSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAI----FIIDVGY 160
+ D + LSK+E I ++ + DA+ +
Sbjct: 30 VDNFDCKDVQDMPKSILSKEE-----------------IDHIIMSKDAVSGTLRLFWTLL 72
Query: 161 HKGA------VSEAIKLNIPI----IGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIV 210
K V E +++N I S Y I D ++ K V
Sbjct: 73 SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY-IEQRDRLYNDNQVFAKYNV 131
Query: 211 DAFLDAKTVGELRSKTLAPIMECKKALIEAN-------------GKLSKAEEILR----- 252
R + P ++ ++AL+E GK A ++
Sbjct: 132 S-----------RLQ---PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 253 IKLGKKI--LNISNRNAKDGVIAIY--ISEKVGSLVEINCETDFVAKNN-EFIKFSKKIA 307
K+ KI LN+ N N+ + V+ + + ++ + K I+ ++
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ--AELR 235
Query: 308 KLITENT-PINLDQLNNLKIKNNLLTVDEKCKELI-SR---IGENIKIRRFKLFKTNNNL 362
+L+ L L N++ + CK L+ +R + + + +++
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295
Query: 363 ISYLHDNKIGVIVEYNGDNESAVKDVAMHIAAMKPIALSSDQIPKKIIEK----EYSLAV 418
++ D ++++Y + + P LS I + I + + V
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPREVLTTN---PRRLS--IIAESIRDGLATWDNWKHV 350
Query: 419 LKAQQLGEALMKGDAYNINSSIIKNIISEIS--EIVSCGIELAIVIGGGNICRGISNKIQ 476
+ ++II++ ++ + E L++ + I +
Sbjct: 351 NCDKL--------------TTIIESSLNVLEPAEYRKMFDRLSVFPPSAH----IPTILL 392
Query: 477 NI---DRSTADYMGMLATIIN-SLALFDILNKSGIIS-HVMSAISIEKFLESYIPLNAIK 531
++ D +D M ++ + SL K IS SI +LE + L
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEKQ--PKESTISIP-----SI--YLELKVKLENEY 443
Query: 532 YLEEGKVVIFAGGIGNPFFTTDTTAALRAAEIKAEIILKATKVDG-IYNSDPNKCLSAII 590
L + ++ I F + D L +D Y+ I
Sbjct: 444 ALH--RSIVDHYNIPKTFDSDD---------------LIPPYLDQYFYSH--------IG 478
Query: 591 Y--KKITFDEVIS--KKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 646
+ K I E ++ + + +D F F QK I
Sbjct: 479 HHLKNIEHPERMTLFRMV-FLD---FRFLE-QK-------IRHDSTAWNASGSILNTLQQ 526
Query: 647 YEIYIMIISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKI 706
+ Y I D ++++N I + L K+ N+ I KY T LL+I
Sbjct: 527 LKFYKPYICD-NDPKYERLVNAI---LDFLPKIEE---NL-----ICSKY----TDLLRI 570
Query: 707 ANITLFNSH 715
A L
Sbjct: 571 A---LMAED 576
Score = 47.5 bits (112), Expect = 2e-05
Identities = 66/431 (15%), Positives = 134/431 (31%), Gaps = 152/431 (35%)
Query: 15 WNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIY------QLGFSKG---TLL--FVG 63
N K + F KI + K + + A + + + +LL ++
Sbjct: 254 QNAKAWNA-FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312
Query: 64 TK-----RQAR-------GVIANEAVRAGMPFIDQRWLGGLLTNFK---------TIKTS 102
+ R+ +IA E++R G+ W N+K I++S
Sbjct: 313 CRPQDLPREVLTTNPRRLSIIA-ESIRDGL----ATW-----DNWKHVNCDKLTTIIESS 362
Query: 103 IQRLKEMDLFITNGSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHK 162
+ L+ + RK+ + +L ++F
Sbjct: 363 LNVLEPAEY-------RKM--------FD---RL---------------SVFPPSA---- 385
Query: 163 GAVSEAIKLNIP--IIGVVDTNHSPDGINYVIPGNDDSAKSIAL-----YTKGIVDAFLD 215
+IP ++ ++ + + V+ N S+ T I +L+
Sbjct: 386 ---------HIPTILLSLIWFDVIKSDVMVVV--NKLHKYSLVEKQPKESTISIPSIYLE 434
Query: 216 AKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGKKILNISNRNAKDGVIAIY 275
K +L ++ +++++ I ++ D +
Sbjct: 435 LKV--KLENEY-----ALHRSIVDH----------YNIPKTFDSDDLI-PPYLDQYFYSH 476
Query: 276 I---------SEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTPIN-----LDQL 321
I E++ + DF F++ K+ ++T N L+ L
Sbjct: 477 IGHHLKNIEHPERMTLFRMV--FLDF-----RFLE-----QKIRHDSTAWNASGSILNTL 524
Query: 322 NNLKI-KNNLLTVDEKCKELISRIGENIKIRRFKLFKTNNNLISYLHDN--KIGVIVEYN 378
LK K + D K + L++ I + F L K NLI + + +I ++ E
Sbjct: 525 QQLKFYKPYICDNDPKYERLVNAILD------F-LPKIEENLICSKYTDLLRIALMAEDE 577
Query: 379 GDNESAVKDVA 389
E A K V
Sbjct: 578 AIFEEAHKQVQ 588
>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA,
structural genomics, human, NPPSFA; NMR {Homo sapiens}
SCOP: a.5.2.2
Length = 64
Score = 58.6 bits (142), Expect = 3e-11
Identities = 16/56 (28%), Positives = 25/56 (44%)
Query: 215 DAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGKKILNISNRNAKDG 270
+ + +LR KT + CKKAL G L +AE L + K+ + + G
Sbjct: 9 SKELLMKLRRKTGYSFVNCKKALETCGGDLKQAEIWLHKEAQKEGWSKAASGPSSG 64
>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 = 64.3 bits (156), Expect = 1e-10
Identities = 65/339 (19%), Positives = 115/339 (33%), Gaps = 128/339 (37%)
Query: 421 AQQLGEALMKGDAYNINSSIIKNI-------------ISEISEIVSCG-IELAIVIGGGN 466
+Q+ G M D Y S +++ S I +IV + L I GG
Sbjct: 1626 SQEQG---MGMDLYK-TSKAAQDVWNRADNHFKDTYGFS-ILDIVINNPVNLTIHFGGE- 1679
Query: 467 ICRGISNKIQNIDRSTADYMGMLATI-----INSLALFDILN---KSGIISH---VMS-- 513
+G + I +Y M+ + + +F +N S ++S
Sbjct: 1680 --KG-----KRI---RENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT 1729
Query: 514 -----AISIEKFLESYIPLNAIKYLEEGKVV---IFAG---G--IGNPFFTTDTTAALRA 560
A+ L +K +G + FAG G AAL A
Sbjct: 1730 QFTQPAL----TLMEKAAFEDLK--SKGLIPADATFAGHSLGEY-----------AAL-A 1771
Query: 561 AEIKAEII-----LKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFC 615
+ A+++ ++ G+ + + DE+ ++ A +
Sbjct: 1772 S--LADVMSIESLVEVVFYRGMT-----------MQVAVPRDELGRSNYGMI---AIN-- 1813
Query: 616 RDQKLPIRVFSIIKSGALKRVIE--GKNEGTLVYEI---------YIMIIS-DIKK-NTK 662
P RV + AL+ V+E GK G LV EI Y+ + D++ +T
Sbjct: 1814 -----PGRVAASFSQEALQYVVERVGKRTGWLV-EIVNYNVENQQYV--AAGDLRALDTV 1865
Query: 663 QKMLNTIKILKENLKKVRTGRANIGM-LDNIQVKYHEHL 700
+LN IK+ +K+ + L+ +V+ HL
Sbjct: 1866 TNVLNFIKL-----QKIDIIELQKSLSLE--EVE--GHL 1895
Score = 59.7 bits (144), Expect = 4e-09
Identities = 74/480 (15%), Positives = 152/480 (31%), Gaps = 160/480 (33%)
Query: 20 SSYIFGHRNKIH------IINLEKTLYMYEKAIRYIYQL------GFSKGT--LLFVGTK 65
+ Y+ G N IH + + TL ++ I+ F K + LF
Sbjct: 93 NCYLEG--NDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALF---- 146
Query: 66 RQARGVIANEAVRAGMP-----F----IDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNG 116
AV G F + L ++T + L + +
Sbjct: 147 ---------RAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL----IKFSAE 193
Query: 117 SIRKLSK--KEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIP 174
++ +L + +A + + + + + +N + PD +++ + +S P
Sbjct: 194 TLSELIRTTLDAEKVFTQGLNILEWL---ENPSNTPDKDYLLSI-----PIS------CP 239
Query: 175 IIGVVDTNHSPDGINYVI--------PGN-DDSAKSIALYTKGIV-----------DAFL 214
+IGV+ H YV+ PG K +++G+V ++F
Sbjct: 240 LIGVIQLAH------YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF 293
Query: 215 DAKT--------VGELRSKTLAPIMECKKALIE---ANGK-----------LSKAEEILR 252
+ +G +R P +++E N + L++ +
Sbjct: 294 VSVRKAITVLFFIG-VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 253 IKL-------GKKILNISNRNAKDG-VIAIYISEKVG---SLVEINCETDFVAKNNEF-- 299
+ GK++ IS N V++ G SL +N +
Sbjct: 353 VNKTNSHLPAGKQV-EISLVNGAKNLVVS-------GPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 300 --IKFSKKIAKLITENTPIN-------LDQLNNLKIKNNLLTVDEKC--KELISRI---- 344
I FS++ K P+ L ++L I +L+ + K++ +I
Sbjct: 405 SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDL-INKDLVKNNVSFNAKDI--QIPVYD 461
Query: 345 ---GENIKIRRFKLFKTNNNLISYLHDNKIGVIVEYNGDNESAVKDVAMHIAAMKPIALS 401
G +++ + ++ + D I+ E+ + A HI P S
Sbjct: 462 TFDGSDLR-------VLSGSISERIVD----CIIRLPVKWETTTQFKATHILDFGPGGAS 510
Score = 52.7 bits (126), Expect = 4e-07
Identities = 40/286 (13%), Positives = 81/286 (28%), Gaps = 107/286 (37%)
Query: 246 KAEEILRIKLGKKILNISNRNAKDGVIAIYISEKVGSLVEINCETDFVAKNNEFIKFSKK 305
+A+ + G IL+I N + + I+ F +
Sbjct: 1648 RADNHFKDTYGFSILDIVINNPVN--LTIH--------------------------FGGE 1679
Query: 306 IAKLITENTPINLDQLNNLKIKNNLLTVDEKCKELISRIGENIKIRRFK-----LFKTNN 360
K I E N + I ++ K +++ I E+ F+ L T
Sbjct: 1680 KGKRIRE----NYSAM----IFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF 1731
Query: 361 N-----LISY-----LHDNKIGVIV-----------EYNGDNESAVKDVAMHIAAMKPIA 399
L+ L G+I EY +A+ + +A
Sbjct: 1732 TQPALTLMEKAAFEDLKSK--GLIPADATFAGHSLGEY-----AAL--AS--LAD----V 1776
Query: 400 LS-SDQIPKKIIEK--EYSLAVLKAQQLGEALMKGDAYN-------INSSIIKNIISEIS 449
+S + +++ + +LG + A N + ++ ++ +
Sbjct: 1777 MSIESLV--EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVG 1834
Query: 450 EIVSCGIELA--------IVIGG--------GNICRGISNKIQNID 479
+ +E+ V G N+ K+Q ID
Sbjct: 1835 KRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLN--FIKLQKID 1878
Score = 48.1 bits (114), Expect = 1e-05
Identities = 56/345 (16%), Positives = 107/345 (31%), Gaps = 122/345 (35%)
Query: 37 KTLY--------MYEKAIRYIYQ-LGFS----------KGTLLFVGTKRQARGVIANEAV 77
LY ++ +A + GFS T+ F G K + +
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR--------I 1684
Query: 78 RAG-MPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIRKLSKKE-ALLFYRKQMK 135
R I + + G L K K + + LS + Q
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKIFKEINEHSTS---YTFRSEKGLLSATQFT------Q-- 1733
Query: 136 LNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVVDTN-----HS---PDG 187
P A+ +++ A E +K G++ + HS
Sbjct: 1734 --------------P-ALTLMEK-----AAFEDLKSK----GLIPADATFAGHSLGE--- 1766
Query: 188 INYVIPGNDDSAKSIALYTKGIVDAFLDA-KTVGELRSKTLAPIMECKKALIEANGKLSK 246
Y AL + V + + V R T+ + + G+ +
Sbjct: 1767 --YA-----------ALASLADVMSIESLVEVV-FYRGMTMQVAVP-----RDELGRSNY 1807
Query: 247 AEEILRIKLGKKILNISNRNAKDGVIAIYISEKVGSLVEI---NCETD-FVAKNNEFIKF 302
++ I G+ + ++ A V+ + ++ G LVEI N E +VA
Sbjct: 1808 G--MIAINPGR-VAASFSQEALQYVVER-VGKRTGWLVEIVNYNVENQQYVA-------- 1855
Query: 303 SKKIAKLITENTPINLDQLNNLKIKN-NL--LTVD---EKCKELI 341
+ + L +T N+ LN +K++ ++ L E+ + +
Sbjct: 1856 AGDLRAL---DTVTNV--LNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 42.7 bits (100), Expect = 6e-04
Identities = 34/198 (17%), Positives = 61/198 (30%), Gaps = 65/198 (32%)
Query: 16 NPKMSSYIFGHRNKIHIINLEKT------LYMYEKAIRYIYQLGFSKGTLLFVGTKRQAR 69
N +SY F + L T L + EKA ++ L +++
Sbjct: 1711 NEHSTSYTFRSEKGL----LSATQFTQPALTLMEKA---AFED------L-------KSK 1750
Query: 70 GVIANEAVRAG---------------MPFID------QRWLGGLLTNFKTIKTSIQRLKE 108
G+I +A AG M R G+ + + R
Sbjct: 1751 GLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYR---GMTMQVAVPRDELGRSNY 1807
Query: 109 MDLFITNGSIRKLSKKEALLFYRKQMKLNRVIGG---IKNMNIIPDAIFIIDVGYHKGAV 165
+ I G + +EAL + ++ + + G I N N + + ++ G A+
Sbjct: 1808 GMIAINPGRVAASFSQEALQYVVER--VGKRTGWLVEIVNYN-VENQQYVA-AG-DLRAL 1862
Query: 166 SEAIKL-------NIPII 176
+ I II
Sbjct: 1863 DTVTNVLNFIKLQKIDII 1880
Score = 39.3 bits (91), Expect = 0.007
Identities = 45/306 (14%), Positives = 88/306 (28%), Gaps = 113/306 (36%)
Query: 578 YNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVI 637
Y + +A + + ++ D+ + I+ + + I
Sbjct: 1636 YKTSK----AA---QDV-WNR--------ADN-----HFKDTYGFSILDIVINNPVNLTI 1674
Query: 638 -EGKNEGTLVYEIYIMIISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKY 696
G +G + E Y +I + + K K K + E+ T R+ G+L
Sbjct: 1675 HFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSY-TFRSEKGLLS------ 1727
Query: 697 HEHLTKLLKIANITLFNSHTISIQPFE--KEMSSIIKKAIN------E-------AN-LG 740
T+ + A L + FE K I A E A+ +
Sbjct: 1728 ---ATQFTQPA---LT---LMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMS 1778
Query: 741 LNPTIQ-----GNIIYVSIP---------------P------LTKERREEIVKLIKNITE 774
+ ++ G + V++P P ++E + +V+ + T
Sbjct: 1779 IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTG 1838
Query: 775 ETKISIRKIRRDSNEN-----------------LKKLLK-NKILSVDNEYRAQYDIQKLT 816
+ I N N + +L K+ + DI +L
Sbjct: 1839 W-LVEI------VNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKI--------DIIELQ 1883
Query: 817 DKFILE 822
LE
Sbjct: 1884 KSLSLE 1889
Score = 32.7 bits (74), Expect = 0.66
Identities = 18/94 (19%), Positives = 31/94 (32%), Gaps = 20/94 (21%)
Query: 719 IQPFEKEM-------SSIIKKAINEA------NLGLNPT--IQGNIIYVSI---PPLTKE 760
Q E+ M S + N A G + + N + ++I K
Sbjct: 1626 SQ--EQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKR 1683
Query: 761 RREEIVKLIKNITEETKISIRKIRRDSNENLKKL 794
RE +I + K+ KI ++ NE+
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSY 1717
>3c1m_A Probable aspartokinase; allosteric inhibition, threonine-sensitive,
ACT DOMA amino-acid biosynthesis, threonine
biosynthesis; HET: ANP; 2.30A {Methanocaldococcus
jannaschii} PDB: 3c1n_A 3c20_A 2hmf_A*
Length = 473
Score = 60.8 bits (148), Expect = 1e-09
Identities = 38/168 (22%), Positives = 65/168 (38%), Gaps = 32/168 (19%)
Query: 519 KFLESYIPLNAIKYLEEGKVVIFAGGIG-NPF--FTT------DTTAALRAAEIKAEIIL 569
+ + + L+EG + + G IG TT D +AAL + A+II
Sbjct: 168 RVKRLEVKERLLPLLKEGIIPVVTGFIGTTEEGYITTLGRGGSDYSAALIGYGLDADIIE 227
Query: 570 KATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLE-------IMDSTAFSFCRDQKLPI 622
T V G+Y +DP +A K+++ E +E ++ ++ +PI
Sbjct: 228 IWTDVSGVYTTDPRLVPTARRIPKLSYIEA----MELAYFGAKVLHPRTIEPAMEKGIPI 283
Query: 623 RVFSIIKSGALKRVIEGKNEGTLVYEIYIM---IISDIKKNTKQKMLN 667
V K E ++EGTL+ M I+ I ++N
Sbjct: 284 LV---------KNTFEPESEGTLITNDMEMSDSIVKAISTIKNVALIN 322
>3ab4_A Aspartokinase; aspartate kinase, concerted inhibition, alternative
initiati amino-acid biosynthesis, ATP-binding; HET: LYS;
2.47A {Corynebacterium glutamicum} PDB: 3aaw_A* 3ab2_A
Length = 421
Score = 55.2 bits (134), Expect = 5e-08
Identities = 38/133 (28%), Positives = 61/133 (45%), Gaps = 31/133 (23%)
Query: 531 KYLEEGKVVIFAG--GIG--NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNS 580
+ L+EGK+ I AG G+ TT DTTA AA + A++ + VDG+Y +
Sbjct: 123 EALDEGKICIVAGFQGVNKETRDVTTLGRGGSDTTAVALAAALNADVCEIYSDVDGVYTA 182
Query: 581 DPNKCLSAIIYKKITFDEVISKKLE-------IMDSTAFSFCRDQKLPIRVFSIIKSGAL 633
DP +A +K++F+E+ LE I+ + + R +P+RV S
Sbjct: 183 DPRIVPNAQKLEKLSFEEM----LELAAVGSKILVLRSVEYARAFNVPLRVRSSYS---- 234
Query: 634 KRVIEGKNEGTLV 646
+ GTL+
Sbjct: 235 ------NDPGTLI 241
>3l76_A Aspartokinase; allostery, ACT domains, kinase transferase; HET:
LYS; 2.54A {Synechocystis}
Length = 600
Score = 53.0 bits (128), Expect = 3e-07
Identities = 30/79 (37%), Positives = 39/79 (49%), Gaps = 11/79 (13%)
Query: 531 KYLEEGKVVIFAG--GIGNPF---FTT------DTTAALRAAEIKAEIILKATKVDGIYN 579
+L EGKVV+ AG GI + TT DT+A AA +KA+ T V GI
Sbjct: 123 HHLREGKVVVVAGFQGISSVEHLEITTLGRGGSDTSAVALAAALKADFCEIYTDVPGILT 182
Query: 580 SDPNKCLSAIIYKKITFDE 598
+DP A + +IT DE
Sbjct: 183 TDPRLVPEAQLMAEITCDE 201
>3d40_A FOMA protein; fosfomycin, antibiotic resistance, kinase, phosphoryl
transfer, transferase; 1.53A {Streptomyces wedmorensis}
PDB: 3d41_A* 3qun_A* 3quo_A* 3qur_A* 3qvf_A* 3qvh_A*
Length = 286
Score = 51.1 bits (122), Expect = 5e-07
Identities = 22/185 (11%), Positives = 58/185 (31%), Gaps = 14/185 (7%)
Query: 430 KGDAYNINSSIIKNIISEISEIVSCGIELAIVI-GGGNICRGISNKIQNIDRSTADYMGM 488
K + +++ + + + ++I GGG G + + +
Sbjct: 38 KDEPGSLDDDAVTRFARNFARLAETYRGRMVLISGGGAFGHGAIRDHDSTHAFSLAGLTE 97
Query: 489 LATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIK----YLEEGKVVIFAG- 543
+ + L G+ + + ++ L + IP + L+ G + + AG
Sbjct: 98 ATFEVKKRWA-EKLRGIGVDAFPLQLAAMC-TLRNGIPQLRSEVLRDVLDHGALPVLAGD 155
Query: 544 -----GIGNPFFTTDTTAALRAAEIKAEI-ILKATKVDGIYNSDPNKCLSAIIYKKITFD 597
F++D + ++ + ++ T VDGI + +
Sbjct: 156 ALFDEHGKLWAFSSDRVPEVLLPMVEGRLRVVTLTDVDGIVTDGAGGDTILPEVDARSPE 215
Query: 598 EVISK 602
+ +
Sbjct: 216 QAYAA 220
>3ll5_A Gamma-glutamyl kinase related protein; alternate mevalonate
pathway, isopentenyl phsophate kinase, beta-alpha
sandwich fold; HET: MSE ADP IPE ATP IP8; 1.99A
{Thermoplasma acidophilum} PDB: 3lkk_A*
Length = 249
Score = 48.4 bits (116), Expect = 3e-06
Identities = 38/242 (15%), Positives = 80/242 (33%), Gaps = 36/242 (14%)
Query: 430 KGDAYNINSSIIKNIISEISEIVSCGIELAIV----IGGGNICRGISNKIQNIDRSTADY 485
K + I++I+ +S +L V G+I + ++
Sbjct: 18 KSAYRTARTYAIRSIVKVLSG----IEDLVCVVHGGGSFGHIKAMEFGLPGPKNPRSS-- 71
Query: 486 MGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAI----KYLEEGKV--- 538
+G + L ++ + +I M IS+ Y +Y++ G V
Sbjct: 72 IGYSIVHRDMENLDLMVIDA-MIEMGMRPISVPISALRYDGRFDYTPLIRYIDAGFVPVS 130
Query: 539 ---VIFAGGIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKIT 595
V ++ D A A +K ++ + T VDGIY+ DP + A++ + I
Sbjct: 131 YGDVYIKDEHSYGIYSGDDIMADMAELLKPDVAVFLTDVDGIYSKDPKRNPDAVLLRDID 190
Query: 596 FDEVISK-----------KLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGT 644
+ + K E + K + + + + + + GT
Sbjct: 191 TNITFDRVQNDVTGGIGKKFE----SMVKMKSSVKNGVYLINGNHPERIGDIGKESFIGT 246
Query: 645 LV 646
++
Sbjct: 247 VI 248
>3tvi_A Aspartokinase; structural genomics, ACT domains, regulatory
domains, kinase transferase, PSI-2, protein structure
initiative; HET: LYS; 3.00A {Clostridium acetobutylicum}
Length = 446
Score = 48.8 bits (117), Expect = 5e-06
Identities = 34/187 (18%), Positives = 66/187 (35%), Gaps = 13/187 (6%)
Query: 423 QLGEALMKGDAYNINSSIIKNIISEISEI-VSCGIELAIVIGGGNICRGISNKIQNIDRS 481
++ + L +A+ N ++ IS+ EL I + + I+N +
Sbjct: 50 KITDLLYLCNAHVKNGIPFDDVFKLISQRYTEIVSELNIDMDIAYYLEKVKKNIENG--A 107
Query: 482 TADYMGMLATIINSLALFDILNKSGI-ISHVMSAISIEKFLESYIPLNAIKYLEEGKVVI 540
++DY +N + L LN I + V+ F E + + +
Sbjct: 108 SSDYAASRGEYLNGVILAKYLNAEFIDAAEVIFFDKSGCFDEKKSYEKIKEKVLSCNKAV 167
Query: 541 FAGGIG-NPFFTTDT--------TAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIY 591
G G + T T ++ +A + A++ T V G +DP +
Sbjct: 168 IPGFYGSSFNGDVKTFSRGGSDVTGSIISAGVNADLYENWTDVSGFLMADPRIVENPKTI 227
Query: 592 KKITFDE 598
KI++ E
Sbjct: 228 SKISYKE 234
>2cdq_A Aspartokinase; aspartate kinase, amino acid metabolism, ACT domain,
alloste S-adenosylmethionine, lysine, allosteric
effector, plant; HET: TAR SAM LYS; 2.85A {Arabidopsis
thaliana} SCOP: c.73.1.3 d.58.18.10 d.58.18.10
Length = 510
Score = 45.9 bits (109), Expect = 4e-05
Identities = 20/95 (21%), Positives = 32/95 (33%), Gaps = 10/95 (10%)
Query: 514 AISIEKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFT----------TDTTAALRAAEI 563
+E + ++ + V I G +G + T +D TA +
Sbjct: 185 GDILEATYPAVAKRLYDDWMHDPAVPIVTGFLGKGWKTGAVTTLGRGGSDLTATTIGKAL 244
Query: 564 KAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDE 598
+ I VDG+ DP A +TFDE
Sbjct: 245 GLKEIQVWKDVDGVLTCDPTIYKRATPVPYLTFDE 279
>2j0w_A Lysine-sensitive aspartokinase 3; feedback inhibition, allosteric
regulation, ACT domain, transferase, amino acid
biosynthesis; HET: ADP; 2.5A {Escherichia coli} SCOP:
c.73.1.3 d.58.18.10 d.58.18.10 PDB: 2j0x_A*
Length = 449
Score = 44.9 bits (107), Expect = 8e-05
Identities = 24/75 (32%), Positives = 30/75 (40%), Gaps = 9/75 (12%)
Query: 533 LEEGKVVIFAGGIG-NPFFTTDT--------TAALRAAEIKAEIILKATKVDGIYNSDPN 583
+VI G IG T T TAAL A + A + T V GIY +DP
Sbjct: 173 RLNEGLVITQGFIGSENKGRTTTLGRGGSDYTAALLAEALHASRVDIWTDVPGIYTTDPR 232
Query: 584 KCLSAIIYKKITFDE 598
+A +I F E
Sbjct: 233 VVSAAKRIDEIAFAE 247
>3ll9_A Isopentenyl phosphate kinase; mevalonate biosynthesis isoprenoid,
transferase; HET: ADP; 2.15A {Methanothermobacter
thermautotrophicusorganism_taxid}
Length = 269
Score = 37.7 bits (88), Expect = 0.011
Identities = 17/110 (15%), Positives = 37/110 (33%), Gaps = 21/110 (19%)
Query: 553 DTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISK---------- 602
D + + E ++ T VDG+Y +P K A + I + +
Sbjct: 161 DQLINHFSLRLMPERVILGTDVDGVYTRNPKKHPDARLLDVIGSLDDLESLDGTLNTDVT 220
Query: 603 -----KLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKN-EGTLV 646
K+ ++ + + + G ++R + G+ GT +
Sbjct: 221 GGMVGKIR-----ELLLLAEKGVESEIINAAVPGNIERALLGEEVRGTRI 265
>2ako_A Glutamate 5-kinase; structural genomics, PSI, protein structure
initiative, NEW YORK SGX research center for structural
genomics, nysgxrc; HET: ADP; 2.20A {Campylobacter
jejuni} SCOP: c.73.1.3
Length = 251
Score = 34.4 bits (80), Expect = 0.12
Identities = 13/63 (20%), Positives = 27/63 (42%), Gaps = 7/63 (11%)
Query: 553 DTTAALRAAEIKAE--IILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIMDST 610
D+ +A A+ +IL + +DG Y+ +P++ A K++ I ++
Sbjct: 143 DSLSAYATHFFDADLLVIL--SDIDGFYDKNPSEFSDA---KRLEKITHIKEEWLQATIK 197
Query: 611 AFS 613
S
Sbjct: 198 TGS 200
>2j5v_A Glutamate 5-kinase; proline biosynthesis, gamma glutamyl kinase,
amino-acid biosynthesis, transferase, feedback
regulation, PUA domain; HET: RGP; 2.5A {Escherichia
coli} PDB: 2j5t_A* 2w21_A
Length = 367
Score = 34.0 bits (79), Expect = 0.18
Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 7/57 (12%)
Query: 553 DTTAALRAAEIKAE--IILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIM 607
D +AL A A+ ++L T G+Y +DP A + I I L +
Sbjct: 150 DNLSALAAILAGADKLLLL--TDQKGLYTADPRSNPQA---ELIKDVYGIDDALRAI 201
>3kzf_A Carbamate kinase; arginine dihydrolase pathway, giardia LAMB
target, transferase; 3.00A {Giardia lamblia atcc 50803}
Length = 317
Score = 32.7 bits (74), Expect = 0.43
Identities = 12/89 (13%), Positives = 26/89 (29%), Gaps = 16/89 (17%)
Query: 525 IPLNAIKYLEEGKVVIFAGGIGNP--------------FFTTDTTAALRAAEIKAEIILK 570
+ IK L + V++ G D +L A + ++ ++
Sbjct: 176 VEYGVIKTLIDNNVLVICTNGGGIPCKRENKVISGVDAVIDKDLATSLLAKTLNSDYLMI 235
Query: 571 ATKVDGIYNSDPNKCLSAIIYKKITFDEV 599
T V + ++I E+
Sbjct: 236 LTDVLNACINYKKP--DERKLEEIKLSEI 262
>1o57_A PUR operon repressor; purine operon repressor, helix-turn-helix
domain, phosphoribosyltranseferases, domain
recombination, DNA binding; HET: EPE P6G 2PE PG4 1PE;
2.20A {Bacillus subtilis} SCOP: a.4.5.40 c.61.1.1 PDB:
1p4a_A*
Length = 291
Score = 31.1 bits (71), Expect = 1.3
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 5/51 (9%)
Query: 724 KEMSSIIKKAINEANLGLNPTIQGN---IIYVSIPPLTKERREEIVKLIKN 771
E +IIK+ + +G T+ G + Y IP + + EE V+ +
Sbjct: 41 SEDLTIIKQTFEQQGIGTLLTVPGAAGGVKY--IPKMKQAEAEEFVQTLGQ 89
>2we5_A Carbamate kinase 1; arginine catabolism, arginine metabolism, ATP
synthesys, open alpha/beta sheet, phosphotransferase,
transferase; HET: ADP; 1.39A {Enterococcus faecalis}
PDB: 1b7b_A 2we4_A*
Length = 310
Score = 31.0 bits (70), Expect = 1.5
Identities = 15/87 (17%), Positives = 27/87 (31%), Gaps = 14/87 (16%)
Query: 525 IPLNAIKYL-EEGKVVIFAGGIGNP-----------FFTTDTTAALRAAEIKAEIILKAT 572
I L + + I GG G P D + A + A+ ++ T
Sbjct: 170 HEAETINTLIKNDIITISCGGGGIPVVGQELKGVEAVIDKDFASEKLAELVDADALVILT 229
Query: 573 KVDGIYNSDPNKCLSAIIYKKITFDEV 599
VD + + + +T E+
Sbjct: 230 GVDYVCINYGKPDEKQL--TNVTVAEL 254
>2e9y_A Carbamate kinase; transferase, structural genomics, NPPSFA,
national project O structural and functional analyses;
1.80A {Aeropyrum pernix}
Length = 316
Score = 31.2 bits (70), Expect = 1.5
Identities = 12/92 (13%), Positives = 29/92 (31%), Gaps = 21/92 (22%)
Query: 525 IPLNAIKYLEEGKVVIFAGGIGNP---------------FFTTDTTAALRAAEIKAEIIL 569
+ + I + A G G D ++L A ++ A++++
Sbjct: 174 VDRDLIAEASAESPAVVALGGGGVPVVERPGGVLEPVEAVVDKDLASSLLATQLNADLLV 233
Query: 570 KATKVDGIYNS--DPNKCLSAIIYKKITFDEV 599
T V G+ + + ++ E+
Sbjct: 234 ILTDVPGVAVNYGREGERW----LRRAAASEL 261
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.5 bits (68), Expect = 1.6
Identities = 13/65 (20%), Positives = 28/65 (43%), Gaps = 14/65 (21%)
Query: 759 KERREEIVKLIKNITEETKISIRKIR-----------RDSNENLKKLLK-NKILSVDNEY 806
++ REE K ++ + +K+ ++ R + +E ++K N+I D +
Sbjct: 88 RKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRI--ADKAF 145
Query: 807 RAQYD 811
Q D
Sbjct: 146 YQQPD 150
Score = 29.7 bits (66), Expect = 2.7
Identities = 11/75 (14%), Positives = 26/75 (34%), Gaps = 21/75 (28%)
Query: 770 KNITEETKISIRKIR---------RDSNENLKK--LLKNKILSVDNEYRAQYDIQKLTDK 818
+T+E + SIRK R D+ + + + ++ + + Q +K
Sbjct: 78 DRLTQEPE-SIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQ-RQSEQV--EK 133
Query: 819 FILEINQLLINKEKE 833
+ N+ +
Sbjct: 134 NKIN------NRIAD 142
>2i71_A Hypothetical protein; structural genomics, APC6294, PSI-2, protein
structure initia midwest center for structural genomics,
MCSG; 1.70A {Sulfolobus solfataricus} SCOP: e.72.1.1
Length = 400
Score = 29.8 bits (66), Expect = 4.0
Identities = 23/189 (12%), Positives = 56/189 (29%), Gaps = 10/189 (5%)
Query: 549 FFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIMD 608
+ A++ A + +YNSDP + K + + L +
Sbjct: 153 YMGVLAKEAIQLAVSAYAAKSEKEVKVSLYNSDPVGKDVSDTVKLHEIEAIKISPLSGLK 212
Query: 609 STAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLVYEIYIMIISDIKKNTKQKMLNT 668
+ K A+ R + G +Y S + + L+
Sbjct: 213 YVTYQILNKDKNFFNKIFSDSVNAIPRFATALDNGLFIY--LSEKDSSLHLKRLEDDLSK 270
Query: 669 IKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLK--IANITLFNSHTISIQPFEKEM 726
+L + ++ + +++ L ++ N+ L + +K
Sbjct: 271 DPLLTPSENEINV------VYKDMKYALSHALFYVISRFSGNVDLDTLRHYAETYADKVT 324
Query: 727 SSIIKKAIN 735
+II+ ++
Sbjct: 325 RAIIENEVD 333
>3qb5_K Translin-associated protein X; alpha helical bundle, ribonuclease,
hydrolase; 2.95A {Homo sapiens} PDB: 3pja_J
Length = 290
Score = 29.3 bits (65), Expect = 5.0
Identities = 12/38 (31%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 760 ERREEIVKLIKNITEETKISIRKI-RRDSNENLKKLLK 796
++ E +VKL ++IT E+K +I + R S +++ +L
Sbjct: 51 DKYERLVKLSRDITVESKRTIFLLHRITSAPDMEDILT 88
>4ab7_A Protein Arg5,6, mitochondrial; transferase, arginine biosynthesis,
amino acid kinase domain GCN5-related acetyltransferase,
GNAT; HET: NLG; 3.25A {Saccharomyces cerevisiae} PDB:
3zzi_A*
Length = 464
Score = 29.3 bits (66), Expect = 6.0
Identities = 10/53 (18%), Positives = 17/53 (32%), Gaps = 4/53 (7%)
Query: 553 DTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAII----YKKITFDEVIS 601
D A A + I+ + GI N + +S I Y + +
Sbjct: 202 DVAAGELARVFEPLKIVYLNEKGGIINGSTGEKISMINLDEEYDDLMKQSWVK 254
>1l9x_A Gamma-glutamyl hydrolase; 1.60A {Homo sapiens} SCOP: c.23.16.1
Length = 315
Score = 28.9 bits (64), Expect = 6.4
Identities = 19/111 (17%), Positives = 31/111 (27%), Gaps = 12/111 (10%)
Query: 506 GIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDTTAALRAAEIKA 565
GI+ ++ + YI + +KYLE AG P T
Sbjct: 34 GILMQKCRNKVMKNYGRYYIAASYVKYLES------AGARVVPVRLDLTEKDYEILFKSI 87
Query: 566 EIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCR 616
IL G + + KI ++ I + + C
Sbjct: 88 NGILFPG---GSVDLRRSDYAKVA---KIFYNLSIQSFDDGDYFPVWGTCL 132
>2nly_A BH1492 protein, divergent polysaccharide deacetylase hypothetical;
PFAM04748, structural PSI, protein structure initiative;
2.50A {Bacillus halodurans} SCOP: c.6.2.7
Length = 245
Score = 28.5 bits (63), Expect = 9.7
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 152 AIFIIDVGYHKGAVSEAIKLNIPI 175
AI I D G V + + IP+
Sbjct: 7 AIIIDDFGGDVKGVDDFLTGEIPV 30
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
0.319 0.137 0.374
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,659,358
Number of extensions: 824517
Number of successful extensions: 2477
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2387
Number of HSP's successfully gapped: 129
Length of query: 837
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 735
Effective length of database: 3,853,851
Effective search space: 2832580485
Effective search space used: 2832580485
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.2 bits)