RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 020319
(327 letters)
>3obk_A Delta-aminolevulinic acid dehydratase; ssgcid, structural genomics,
seattle structural genomics CEN infectious disease,
lyase; HET: PBG; 2.50A {Toxoplasma gondii ME49}
Length = 356
Score = 389 bits (1001), Expect = e-136
Identities = 128/239 (53%), Positives = 167/239 (69%), Gaps = 3/239 (1%)
Query: 84 VPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGEEDTP 143
+ P+ LP+ RPRRNRK+ A+R QE + P++ +YPLF+H+ E P
Sbjct: 1 MTPRGPLDNNNYGEVWLPIQARPRRNRKNRAVRQLVQENLVKPSSLIYPLFVHDEETSVP 60
Query: 144 IGAMPGCYRLGWRHGLVQEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTI 203
I +MPG RL L++EV +AR G+ + +LFPKV D LKS +E+YN +GL+PR I
Sbjct: 61 IPSMPGQSRLSMED-LLKEVGEARSYGIKAFMLFPKVDDELKSVMAEESYNPDGLLPRAI 119
Query: 204 WLLKDRYPDLVIYTDVALDPYSSDGHDGIVR-EDGVIMNDETVHQLCKQAVSQARAGADV 262
LK+ +PD+++ DVALDPYSS GHDG+V + G I+ND TVHQLCKQA++ ARAGAD+
Sbjct: 120 MALKEAFPDVLLLADVALDPYSSMGHDGVVDEQSGKIVNDLTVHQLCKQAITLARAGADM 179
Query: 263 VSPSDMMDGRVGAIRAALDAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFG-DKKT 320
V PSDMMDGRV AIR +LD EG SI++Y+ KYASSFYGPFR+ALDS+ G DKKT
Sbjct: 180 VCPSDMMDGRVSAIRESLDMEGCTDTSILAYSCKYASSFYGPFRDALDSHMVGGTDKKT 238
>1w5q_A Delta-aminolevulinic acid dehydratase; synthase, evolution,
metalloenzyme, porphobilinogen synthase, protein
engineering,; 1.4A {Pseudomonas aeruginosa} PDB: 1w5p_A*
1w5o_A 1w5n_A 1w56_A 1w5m_A 1w54_A 1gzg_A* 1b4k_A
2woq_A* 2c14_A* 2c16_A* 2c19_A* 2c15_A* 2c18_A* 2c13_A*
Length = 337
Score = 369 bits (951), Expect = e-128
Identities = 93/230 (40%), Positives = 139/230 (60%), Gaps = 5/230 (2%)
Query: 94 TPVVPSLPLSRRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGEEDT-PIGAMPGCYR 152
TP + P R RRNR+ R +E L+ + + P+F+ +G I +MPG R
Sbjct: 4 TPANRAYP-YTRLRRNRRDDFSRRLVRENVLTVDDLILPVFVLDGVNQRESIPSMPGVER 62
Query: 153 LGWRHGLVQEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPD 212
L L+ E + +G+ ++ LFP P KS EAYN G+ R L++R+P+
Sbjct: 63 LSIDQ-LLIEAEEWVALGIPALALFPVTPVEKKSLDAAEAYNPEGIAQRATRALRERFPE 121
Query: 213 LVIYTDVALDPYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGR 272
L I TDV L +++ G GI+ +DG ++ND ++ L +QA+S A AGA VV+PSDMMDGR
Sbjct: 122 LGIITDVCLCEFTTHGQCGILDDDGYVLNDVSIDVLVRQALSHAEAGAQVVAPSDMMDGR 181
Query: 273 VGAIRAALDAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRF--GDKKT 320
+GAIR AL++ G +V +M+Y+AKYAS++YGPFR+A+ S G++ T
Sbjct: 182 IGAIREALESAGHTNVRVMAYSAKYASAYYGPFRDAVGSASNLGKGNRAT 231
>1w1z_A Delta-aminolevulinic acid dehydratase; synthase, tetrapyrrole
biosynthesis, ALAD, porphyrin biosynt heme biosynthesis,
lyase; 2.6A {Prosthecochloris vibrioformis} SCOP:
c.1.10.3 PDB: 2c1h_A*
Length = 328
Score = 367 bits (946), Expect = e-128
Identities = 113/225 (50%), Positives = 148/225 (65%), Gaps = 5/225 (2%)
Query: 97 VPSLPLSRRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGE-EDTPIGAMPGCYRLGW 155
+ L + RPRR R++ A+R QE L+ + V+PLF+ G + +MPG +R
Sbjct: 4 LDLLNIVHRPRRLRRTAALRNLVQENTLTVNDLVFPLFVMPGTNAVEEVSSMPGSFRFTI 63
Query: 156 RHGLVQEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVI 215
V+E + D+G+ + LF +P+ K+ G EAYNDNG++ + I +K P+L I
Sbjct: 64 DR-AVEECKELYDLGIQGIDLFG-IPE-QKTEDGSEAYNDNGILQQAIRAIKKAVPELCI 120
Query: 216 YTDVALDPYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGA 275
TDVALDP++ GHDG+V +DG+I+NDETV L K AVS A AGAD VSPSDMMDGR+GA
Sbjct: 121 MTDVALDPFTPFGHDGLV-KDGIILNDETVEVLQKMAVSHAEAGADFVSPSDMMDGRIGA 179
Query: 276 IRAALDAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
IR ALD V I+SY AKYASSFYGPFR+AL S P+FGDK T
Sbjct: 180 IREALDETDHSDVGILSYAAKYASSFYGPFRDALHSAPQFGDKST 224
>1l6s_A Porphobilinogen synthase; dehydratase, lyase; HET: CME DSB; 1.70A
{Escherichia coli} SCOP: c.1.10.3 PDB: 1i8j_A* 1l6y_A*
1b4e_A
Length = 323
Score = 348 bits (895), Expect = e-120
Identities = 100/220 (45%), Positives = 141/220 (64%), Gaps = 6/220 (2%)
Query: 102 LSRRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGEED-TPIGAMPGCYRLGWRHGLV 160
L +RPRR RKSPA+RA F+ET LS + V P+F+ E +D + AMPG R+ +H L
Sbjct: 3 LIQRPRRLRKSPALRAMFEETTLSLNDLVLPIFVEEEIDDYKAVEAMPGVMRIPEKH-LA 61
Query: 161 QEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTDVA 220
+E+ + + G+ SV+ F + TG +A+ ++GLV R + K P++++ +D
Sbjct: 62 REIERIANAGIRSVMTFG-ISH-HTDETGSDAWREDGLVARMSRICKQTVPEMIVMSDTC 119
Query: 221 LDPYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIRAAL 280
Y+S GH G++ E GV ND T+ L KQAV A AGAD ++PS MDG+V AIR AL
Sbjct: 120 FCEYTSHGHCGVLCEHGV-DNDATLENLGKQAVVAAAAGADFIAPSAAMDGQVQAIRQAL 178
Query: 281 DAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
DA GF+ +IMSY+ K+ASSFYGPFREA S + GD+K+
Sbjct: 179 DAAGFKDTAIMSYSTKFASSFYGPFREAAGSALK-GDRKS 217
>1pv8_A Delta-aminolevulinic acid dehydratase; porphobilinogen synthase,
tetrapyrrole biosynthesis, reactio intermediate, lyase;
HET: PB1; 2.20A {Homo sapiens} SCOP: c.1.10.3 PDB:
1e51_A* 2z0i_A 2z1b_A
Length = 330
Score = 347 bits (893), Expect = e-120
Identities = 81/223 (36%), Positives = 127/223 (56%), Gaps = 8/223 (3%)
Query: 105 RPRRNRKSPAMRA-----SFQETNLSPANFVYPLFIHEGE-EDTPIGAMPGCYRLGWRHG 158
+P+ S + T L+ +N +YP+F+ + + PI ++PG R G +
Sbjct: 2 QPQSVLHSGYLHPLLRAWQTATTTLNASNLIYPIFVTDVPDDIQPITSLPGVARYGVKR- 60
Query: 159 LVQEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTD 218
L + + + G+ V++F K G A ++ I LL+ +P+L++ D
Sbjct: 61 LEEMLRPLVEEGLRCVLIFGVPSRVPKDERGSAADSEESPAIEAIHLLRKTFPNLLVACD 120
Query: 219 VALDPYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIRA 278
V L PY+S GH G++ E+G +E+ +L + A++ A+AG VV+PSDMMDGRV AI+
Sbjct: 121 VCLCPYTSHGHCGLLSENGAFRAEESRQRLAEVALAYAKAGCQVVAPSDMMDGRVEAIKE 180
Query: 279 ALDAEGFQ-HVSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
AL A G VS+MSY+AK+AS FYGPFR+A S+P FGD++
Sbjct: 181 ALMAHGLGNRVSVMSYSAKFASCFYGPFRDAAKSSPAFGDRRC 223
>1h7n_A 5-aminolaevulinic acid dehydratase; lyase, aldolase, TIM barrel,
tetrapyrrole synthesis; HET: SHF; 1.6A {Saccharomyces
cerevisiae} SCOP: c.1.10.3 PDB: 1h7p_A* 1h7r_A* 1ohl_A*
1qml_A 1qnv_A 1w31_A* 1h7o_A* 1eb3_A* 1gjp_A* 1ylv_A*
1aw5_A
Length = 342
Score = 334 bits (858), Expect = e-114
Identities = 75/229 (32%), Positives = 117/229 (51%), Gaps = 4/229 (1%)
Query: 95 PVVPSLPLSRRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGE-EDTPIGAMPGCYRL 153
+S P +R E L+ ++PLFI + + T I ++P R+
Sbjct: 7 LETEPTEISSVLAGGYNHPLLRQWQSERQLTKNMLIFPLFISDNPDDFTEIDSLPNINRI 66
Query: 154 GWRHGLVQEVAKARDVGVNSVVLFP-KVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPD 212
G + L + G+ SV+LF + K P G A + G V + I +++ +P+
Sbjct: 67 G-VNRLKDYLKPLVAKGLRSVILFGVPLIPGTKDPVGTAADDPAGPVIQGIKFIREYFPE 125
Query: 213 LVIYTDVALDPYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGR 272
L I DV L Y+S GH G++ +DG I + +V +L AV+ A+AGA V+PSDM+DGR
Sbjct: 126 LYIICDVCLCEYTSHGHCGVLYDDGTINRERSVSRLAAVAVNYAKAGAHCVAPSDMIDGR 185
Query: 273 VGAIRAALDAEGFQH-VSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
+ I+ L H ++SY AK++ + YGPFR+A S P GD+K
Sbjct: 186 IRDIKRGLINANLAHKTFVLSYAAKFSGNLYGPFRDAACSAPSNGDRKC 234
>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 = 51.0 bits (121), Expect = 3e-07
Identities = 43/318 (13%), Positives = 85/318 (26%), Gaps = 103/318 (32%)
Query: 34 FNCVKTKT-VTTRRLVVTASKSHDGTTK------KLGISDAECEA--AVVAGNIPEAPPV 84
+C K +TTR VT S TT + ++ E ++ P+ P
Sbjct: 264 LSC---KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP- 319
Query: 85 PPKPAAPAGTPVVPSL---PLSRRPRR---------NRKSPAMRASFQETNLSPANF--V 130
P S+ + ++ + + +S L PA + +
Sbjct: 320 ---REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN--VLEPAEYRKM 374
Query: 131 Y-PLFIHEGEEDTPIGAMPGCYRLGWRHGLVQEVAKARDVGVNSVVLFPKVPDALKSPTG 189
+ L + I L W + +V V V K S
Sbjct: 375 FDRLSVF--PPSAHI--PTILLSLIWFDVIKSDV---MVV----VNKLHK-----YS--- 415
Query: 190 DEAYNDNGLVPRTIWLLKDRYPDLVIYTDVALDPYSSDGHDGIVREDGVIMNDETVHQLC 249
L++ + + I + + N+ +H+
Sbjct: 416 ---------------LVEKQPKESTISI-----------PSIYLELKVKLENEYALHRSI 449
Query: 250 KQAVSQARA--GADVVSPSDMMDGRVGAIRAALDAEGFQHVSIMSY---TAKYASSFYGP 304
+ + D++ P D + H+ + ++
Sbjct: 450 VDHYNIPKTFDSDDLIPPYL--DQYF-----------YSHI---GHHLKNIEHPERMTL- 492
Query: 305 FREA-LDSNPRFGDKKTK 321
FR LD RF ++K +
Sbjct: 493 FRMVFLDF--RFLEQKIR 508
>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 = 40.0 bits (93), Expect = 0.001
Identities = 55/329 (16%), Positives = 91/329 (27%), Gaps = 152/329 (46%)
Query: 23 YVGLR-----PSVTLRFNCVK-----TKTVTTRRLVVTASKSHDGTTKKLGISDAECEAA 72
++G+R P+ +L + ++ + V + L ++ ++ + +
Sbjct: 305 FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS------------NLTQEQVQDY 352
Query: 73 VVAGN--IPEAPPV---------------PP-----------KPAAPAGTPVVPSLPLSR 104
V N +P V PP K AP+G L SR
Sbjct: 353 VNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSG------LDQSR 406
Query: 105 RPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGEEDTPIGAMPGCYRLGWRHGLVQEVA 164
P RK F L P+ + P + H
Sbjct: 407 IPFSERK-LKFSNRF----L------------------PVAS-P--F-----H------- 428
Query: 165 KARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTDVALD-P 223
S LVP + + KD + V + + P
Sbjct: 429 ---------------------SH-----L----LVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 224 -YSS-DGHDGIVREDGVIMNDETVHQLCKQAV-----SQARA------GADVVSP----- 265
Y + DG D +R +++ V + + V +Q +A G S
Sbjct: 459 VYDTFDGSD--LRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLT 516
Query: 266 SDMMDGR-VGAIRA-ALDAE-----GFQH 287
DG V I A LD GF+
Sbjct: 517 HRNKDGTGVRVIVAGTLDINPDDDYGFKQ 545
Score = 33.9 bits (77), Expect = 0.078
Identities = 41/222 (18%), Positives = 68/222 (30%), Gaps = 72/222 (32%)
Query: 110 RKSPAMRA-------SFQET-NLSPANFV--YP--LFIHE-GEEDTPIGA--MPGCYRLG 154
+ S A + F++T S + V P L IH GE+ I +
Sbjct: 1637 KTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFE-- 1694
Query: 155 WRHGLVQEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRT------------ 202
D + + +F ++ + S T ++ GL+ T
Sbjct: 1695 ----------TIVDGKLKTEKIFKEINEHSTSYTF---RSEKGLLSATQFTQPALTLMEK 1741
Query: 203 -IW-LLKDR--YPDLVI--------YTDVALDPYSSDGHDGIVR-EDGVIMNDETVHQ-- 247
+ LK + P Y AL +S ++ E V E V
Sbjct: 1742 AAFEDLKSKGLIPADATFAGHSLGEYA--AL---ASLA--DVMSIESLV----EVVFYRG 1790
Query: 248 -LCKQAVSQARAGADVVSPSDMMDGRVGAIRAALDAEGFQHV 288
+ AV + G S M+ G + A+ E Q+V
Sbjct: 1791 MTMQVAVPRDELGR---SNYGMIAINPGRVAASFSQEALQYV 1829
Score = 29.2 bits (65), Expect = 2.0
Identities = 32/209 (15%), Positives = 64/209 (30%), Gaps = 73/209 (34%)
Query: 127 ANFVYPLFIH-----EGEEDTP---------IGAMPG------------CYRLGWRHGLV 160
A V+ ++ E +TP I + P LG+ G +
Sbjct: 205 AEKVFTQGLNILEWLENPSNTPDKDYLLSIPI-SCPLIGVIQLAHYVVTAKLLGFTPGEL 263
Query: 161 QEVAKARDVGVNSVVLFPKVPDAL---KSPTGDEAYNDNGLVPRTIWLL-------KDRY 210
+ K +V A+ ++ + + + V + I +L + Y
Sbjct: 264 RSYLKGATGHSQGLVT------AVAIAETDSWESFFV---SVRKAITVLFFIGVRCYEAY 314
Query: 211 PDLVIYTDVALDPYSSDGHDGI------VREDGVIMNDETVHQLCKQA---VSQARA--- 258
P+ + + D S + ++G+ + + E V + + +
Sbjct: 315 PNTSLPPSILED--SLENNEGVPSPMLSIS--N--LTQEQVQDYVNKTNSHLPAGKQVEI 368
Query: 259 ----GAD--VVS--PSDMMDGRVGAIRAA 279
GA VVS P + G +R A
Sbjct: 369 SLVNGAKNLVVSGPPQSLY-GLNLTLRKA 396
Score = 29.2 bits (65), Expect = 2.4
Identities = 31/278 (11%), Positives = 64/278 (23%), Gaps = 101/278 (36%)
Query: 46 RLVVTASKSHDGTTKKLGISDAECEAAVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLSRR 105
+ V + +H G S + +V N P + +R
Sbjct: 1643 QDVWNRADNH--FKDTYGFSILD----IVINN--------PVNLT-----IHFGGEKGKR 1683
Query: 106 PRRN-----RKSPAMRASFQETNLSPANFVYPLFIHEGEED----T----PIGAM----P 148
R N ++ E N + E+ T P A+
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP--ALTLMEK 1741
Query: 149 GCYRLGWRHGLVQE---------------VAKARDVGVNSVVLFPKVPDALKSPTGDEAY 193
+ GL+ + A V S+ ++
Sbjct: 1742 AAFEDLKSKGLIPADATFAGHSLGEYAALASLA---DVMSI------ESLVE-------- 1784
Query: 194 NDNGLVPRTIWLLKDRYPDLVIYTDVALDPYSSDGHDGI-VREDGVI--MNDETVHQLCK 250
++ R + + V D + I + V + E + + +
Sbjct: 1785 -----------VVFYR--GMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVE 1831
Query: 251 QAVSQARAGADVVSPSDMMDGRVGAIRAALDAEGFQHV 288
+ + +V + E Q+V
Sbjct: 1832 RV---GKRTGWLVEI------------VNYNVENQQYV 1854
>3go6_A Ribokinase RBSK; phosphofructokinase, carbohydrate kinase,
transferase; HET: RIB ADP; 1.98A {Mycobacterium
tuberculosis} PDB: 3go7_A*
Length = 310
Score = 32.2 bits (74), Expect = 0.21
Identities = 15/40 (37%), Positives = 17/40 (42%), Gaps = 11/40 (27%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA------IRAALDAEG 284
QAV+ ARAGA V G G +RA L A
Sbjct: 62 QAVAAARAGAQVQ-----FSGAFGDDPAAAQLRAHLRANA 96
>2rbc_A Sugar kinase, AGR_C_4560P; ribokinase family, ATP-binding site,
structura genomics, PSI-2, protein structu initiative;
HET: MSE GOL; 1.90A {Agrobacterium tumefaciens str}
Length = 343
Score = 31.8 bits (73), Expect = 0.28
Identities = 9/40 (22%), Positives = 11/40 (27%), Gaps = 11/40 (27%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA------IRAALDAEG 284
A + R G + G VG I L G
Sbjct: 72 AAYAVHRMGGRAS-----LWGAVGDDETGTRILRDLSESG 106
>3ikh_A Carbohydrate kinase; transferase,kinase,SAD,ribose,D-ribose
metabolic process,ATP ribokinase, PFKB
family,11206L1,PSI-II,nysgxrc; HET: ATP; 1.88A
{Klebsiella pneumoniae subsp} PDB: 3i3y_A*
Length = 299
Score = 31.7 bits (73), Expect = 0.29
Identities = 8/40 (20%), Positives = 13/40 (32%), Gaps = 11/40 (27%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA------IRAALDAEG 284
QA+ +R G + + G IR + E
Sbjct: 45 QAIILSRCGIETR-----LIAATGNDSNGAWIRQQIKNEP 79
>1vm7_A Ribokinase; TM0960, structural genomics, JCSG, protein struc
initiative, PSI, joint center for structural genomics,
TRAN; 2.15A {Thermotoga maritima} SCOP: c.72.1.1
Length = 311
Score = 31.7 bits (73), Expect = 0.30
Identities = 7/40 (17%), Positives = 12/40 (30%), Gaps = 10/40 (25%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA------IRAALDAEG 284
QAV+ A+ G +G + + G
Sbjct: 57 QAVTVAKIGEKGCR----FVTCIGNDDYSDLLIENYEKLG 92
>1rkd_A Ribokinase; carbohydrate kinase, ribose, nucleotide binding,
transferase; HET: RIB ADP; 1.84A {Escherichia coli}
SCOP: c.72.1.1 PDB: 1gqt_A* 1rka_A 1rk2_A* 1rks_A*
Length = 309
Score = 31.3 bits (72), Expect = 0.39
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 11/40 (27%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA------IRAALDAEG 284
QAV+ R+GA++ G +R L +
Sbjct: 47 QAVAAGRSGANI-----AFIACTGDDSIGESVRQQLATDN 81
>3ry7_A Ribokinase; transferase; 2.15A {Staphylococcus aureus}
Length = 304
Score = 30.9 bits (71), Expect = 0.46
Identities = 8/40 (20%), Positives = 12/40 (30%), Gaps = 11/40 (27%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA------IRAALDAEG 284
QA++ AR AD ++G I
Sbjct: 46 QAIATARMQADT-----TFITKIGTDGVADFILEDFKVAH 80
>2fv7_A Ribokinase; structural genomics, structural genomics consort
transferase; HET: ADP; 2.10A {Homo sapiens} SCOP:
c.72.1.1
Length = 331
Score = 30.6 bits (70), Expect = 0.57
Identities = 10/40 (25%), Positives = 11/40 (27%), Gaps = 11/40 (27%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA------IRAALDAEG 284
Q V AR GA M +VG L
Sbjct: 67 QCVQAARLGAMT-----SMVCKVGKDSFGNDYIENLKQND 101
>3b1n_A Ribokinase, putative; rossmann fold, ATP binding, Mg binding,
nucleoside B transferase; HET: MZR ADP; 1.55A
{Burkholderia thailandensis} PDB: 3b1o_A 3b1p_A* 3b1q_A*
3b1r_A*
Length = 326
Score = 29.9 bits (68), Expect = 1.0
Identities = 11/39 (28%), Positives = 14/39 (35%), Gaps = 10/39 (25%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA-----IRAALDAEG 284
A + G D MM G +GA +DA G
Sbjct: 53 IAYALNLLGGDAR----MM-GTLGAVDAQPYLDRMDALG 86
>3dva_I Dihydrolipoyllysine-residue acetyltransferase component of pyruvate
dehydrogenase...; oxidoreductase, multienzyme complex;
HET: TPW; 2.35A {Bacillus stearothermophilus} PDB:
3dv0_I* 3duf_I* 1b5s_A 1lab_A 1lac_A 1w3d_A
Length = 428
Score = 29.9 bits (68), Expect = 1.0
Identities = 8/80 (10%), Positives = 17/80 (21%)
Query: 48 VVTASKSHDGTTKKLGISDAECEAAVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPR 107
V +GT +G + +A + V +
Sbjct: 55 KVLEILVPEGTVATVGQTLITLDAPGYENMTFKGQEQEEAKKEEKTETVSKEEKVDAVAP 114
Query: 108 RNRKSPAMRASFQETNLSPA 127
+ A + P+
Sbjct: 115 NAPAAEAEAGPNRRVIAMPS 134
>3pik_A Cation efflux system protein CUSC; beta-barrel, lipoprotein, outer
membrane; HET: UNL; 2.30A {Escherichia coli}
Length = 446
Score = 29.9 bits (68), Expect = 1.1
Identities = 7/39 (17%), Positives = 16/39 (41%), Gaps = 4/39 (10%)
Query: 72 AVVAGNIPEAPPVPPKPAAPAGTPVVPS-LP---LSRRP 106
++ G+ + P + + +P+ L L +RP
Sbjct: 226 QLLLGSYGKLPQAQTVNSDSLQSVKLPAGLSSQILLQRP 264
>2qo3_A Eryaii erythromycin polyketide synthase modules 3; ketosynthase,
acyltransferase, phosphopantetheine, transfera; 2.59A
{Saccharopolyspora erythraea}
Length = 915
Score = 30.3 bits (69), Expect = 1.1
Identities = 8/26 (30%), Positives = 10/26 (38%), Gaps = 1/26 (3%)
Query: 80 EAPPVPPKPAAPAGTPVVPSLPLSRR 105
EAP + VP L +S R
Sbjct: 430 EAPEREHRETTAHDGRPVP-LVVSAR 454
>2nwh_A AGR_C_3442P, carbohydrate kinase; structural genomics, APC6199,
PSI-2, PR structure initiative 2; 1.86A {Agrobacterium
tumefaciens str}
Length = 317
Score = 29.5 bits (67), Expect = 1.4
Identities = 7/40 (17%), Positives = 12/40 (30%), Gaps = 11/40 (27%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVG------AIRAALDAEG 284
A + +R G +V + G + A G
Sbjct: 45 AARNLSRLGFEV-----RIIAPRGGDVTGEVVAEAARQAG 79
>2uv8_A Fatty acid synthase subunit alpha (FAS2); fatty acid biosynthesis,
malonyl/palmitoyl transferase, phosphopantetheine,
transferase; HET: GVL FMN; 3.10A {Saccharomyces
cerevisiae} PDB: 2vkz_A* 3hmj_A*
Length = 1887
Score = 29.6 bits (66), Expect = 1.8
Identities = 8/39 (20%), Positives = 11/39 (28%)
Query: 65 SDAECEAAVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLS 103
+ A AA AP A A + P+
Sbjct: 108 APAPTPAASAPAPAAAAPAPVAAAAPAAAAAEIADEPVK 146
>2hg4_A DEBS, 6-deoxyerythronolide B synthase; ketosynthase,
acyltransferase, module 5, transferase; 2.73A
{Saccharopolyspora erythraea}
Length = 917
Score = 29.2 bits (66), Expect = 2.5
Identities = 10/28 (35%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 78 IPEAPPVPPKPAAPAGTPVVPSLPLSRR 105
I E P +P + VP L LS R
Sbjct: 449 IVEEAPEADEPEPAPDSGPVP-LVLSGR 475
>1fpz_A Cyclin-dependent kinase inhibitor 3; alpha-beta sandwich,
hydrolase; 2.00A {Homo sapiens} SCOP: c.45.1.1 PDB:
1fq1_A*
Length = 212
Score = 28.1 bits (62), Expect = 3.0
Identities = 12/100 (12%), Positives = 34/100 (34%), Gaps = 6/100 (6%)
Query: 105 RPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGEEDTP--IGAM--PGCYRLGWRHGLV 160
+P + ++ +S +E ++ ++ + +G PGC R +
Sbjct: 2 KPPSSIQTSEFDSSDEEPIEDEQTPIHISWLSLSRVNCSQFLGLCALPGCKFKDVRRNVQ 61
Query: 161 QEVAKARDVGVNSVV--LFPKVPDALKSPTGDEAYNDNGL 198
++ + + G+ + + P + Y G+
Sbjct: 62 KDTEELKSCGIQDIFVFCTRGELSKYRVPNLLDLYQQCGI 101
>2h8l_A Protein disulfide-isomerase A3; thioredoxin-like fold; 2.00A {Homo
sapiens}
Length = 252
Score = 28.2 bits (62), Expect = 3.3
Identities = 11/75 (14%), Positives = 23/75 (30%), Gaps = 2/75 (2%)
Query: 157 HGLVQEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTI--WLLKDRYPDLV 214
H V+ + D ++LF K AY + + I ++ ++ +
Sbjct: 58 HTNVESLVNEYDDNGEGIILFRPSHLTNKFEDKTVAYTEQKMTSGKIKKFIQENIFGICP 117
Query: 215 IYTDVALDPYSSDGH 229
T+ D
Sbjct: 118 HMTEDNKDLIQGKDL 132
>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP,
signaling protein; HET: GNP; 2.00A {Thermotoga maritima}
PDB: 3cnn_A* 3cno_A*
Length = 262
Score = 28.0 bits (63), Expect = 4.4
Identities = 5/44 (11%), Positives = 10/44 (22%), Gaps = 7/44 (15%)
Query: 175 VLFPKVPD-------ALKSPTGDEAYNDNGLVPRTIWLLKDRYP 211
+L+ + L E D + R +
Sbjct: 154 ILYKNIFSEDLAAKLLLVGSLPVERIEDQRIFERAFEIFARSIG 197
>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 = 27.2 bits (59), Expect = 4.8
Identities = 8/27 (29%), Positives = 9/27 (33%), Gaps = 7/27 (25%)
Query: 296 KYASSF--YGPFREALDSNPRFGDKKT 320
K +S Y DS P K T
Sbjct: 24 KLQASLKLYAD-----DSAPALAIKAT 45
Score = 27.2 bits (59), Expect = 5.1
Identities = 7/23 (30%), Positives = 13/23 (56%), Gaps = 4/23 (17%)
Query: 1 MASSV-FHAPCGAP--SIK-QLE 19
+ +S+ +A AP +IK +E
Sbjct: 25 LQASLKLYADDSAPALAIKATME 47
>2c4e_A Sugar kinase MJ0406; transferase, nucleoside kinase,
hyperthermophIle, ribokinase ribokinase fold; 1.70A
{Methanococcus jannaschii} PDB: 2c49_A
Length = 302
Score = 27.6 bits (62), Expect = 5.2
Identities = 6/40 (15%), Positives = 10/40 (25%), Gaps = 11/40 (27%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA------IRAALDAEG 284
AV + G + ++ VG L
Sbjct: 48 TAVGIKKLGVNSE----LL-SCVGYDFKNSGYERYLKNLD 82
>4ayb_C DNA-directed RNA polymerase; transferase, multi-subunit,
transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_C
4b1o_C 4b1p_Y 2waq_C 2wb1_C 3hkz_C 2pmz_C
Length = 395
Score = 27.8 bits (61), Expect = 5.4
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 107 RRNRKSPAMRASFQET 122
+ S RA+F+ T
Sbjct: 335 TGEKNSVLARAAFEVT 350
>2pkf_A Adenosine kinase; transferase, S genomics, TB structural genomics
consortium, TBSGC; 1.50A {Mycobacterium tuberculosis}
PDB: 2pkk_A* 2pkm_A* 2pkn_A*
Length = 334
Score = 27.7 bits (62), Expect = 5.4
Identities = 13/46 (28%), Positives = 17/46 (36%), Gaps = 11/46 (23%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA----IRAALDAEG--FQHVSI 290
A + G +V ++ G GA R L A G HV I
Sbjct: 63 MAFAIGVLGGEVA----LV-GAAGADFADYRDWLKARGVNCDHVLI 103
>3hhd_A Fatty acid synthase; transferase, multienzyme, megasynthase, fatty
acid synthesis, acetylation, cytoplasm, fatty acid
biosynthesis, hydrolase; 2.15A {Homo sapiens} PDB:
2jfk_A* 2jfd_A
Length = 965
Score = 27.5 bits (62), Expect = 6.9
Identities = 9/26 (34%), Positives = 10/26 (38%), Gaps = 2/26 (7%)
Query: 80 EAPPVPPKPAAPAGTPVVPSLPLSRR 105
PP PA A P + L S R
Sbjct: 408 PNTQPPPAPAPHATLPRL--LRASGR 431
>3bbo_T Ribosomal protein L21; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 257
Score = 27.3 bits (60), Expect = 7.1
Identities = 12/90 (13%), Positives = 28/90 (31%)
Query: 79 PEAPPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEG 138
P + P + P+ + + ++R R ++A F+E P +
Sbjct: 32 PLSKPFSGVVSPPSLSRLSLLPVAAKRRRFQEIPEELKAEFEEFQRPPNQKPQLSDVLPD 91
Query: 139 EEDTPIGAMPGCYRLGWRHGLVQEVAKARD 168
+ P P + + + R+
Sbjct: 92 DFQAPEPGTPEYNDIINQFLPKKGPPPPRE 121
>3h49_A Ribokinase; transferase,PFKB family,sugar kinase YDJH,
NYSGXRC,11206A,PSI2,, structural genomics, protein
structure initiative; 1.80A {Escherichia coli k-12} PDB:
3in1_A*
Length = 325
Score = 27.2 bits (61), Expect = 7.6
Identities = 7/40 (17%), Positives = 11/40 (27%), Gaps = 11/40 (27%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVGA------IRAALDAEG 284
+A +R G + R+G I E
Sbjct: 49 EATIISRLGHRTA-----LMSRIGKDAAGQFILDHCRKEN 83
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase;
3.00A {Giardia intestinalis} PDB: 2ffl_A
Length = 756
Score = 27.6 bits (61), Expect = 7.9
Identities = 9/58 (15%), Positives = 16/58 (27%), Gaps = 8/58 (13%)
Query: 266 SDMMDGRVGAIRAALDAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKTKLQ 323
+DM + VG+I G ++ + + D TK
Sbjct: 405 ADMYEEIVGSI--FTGPNGIYGCE------EFLAKTLMSPEHSKTVGSACPDAVTKAS 454
>2qc1_B Acetylcholine receptor subunit alpha; nicotinic acetylcholine
receptor, glycosylated protein, beta sandwich, Cys-loop,
buried hydrophilic residues; HET: NAG MAN; 1.94A {Mus
musculus} PDB: 1l4w_B 1ljz_B
Length = 212
Score = 26.6 bits (59), Expect = 8.6
Identities = 9/41 (21%), Positives = 14/41 (34%), Gaps = 5/41 (12%)
Query: 200 PRTIWLLKDRYPDLVIYTDVALDPYSSDGHDGIVREDGVIM 240
IW PD+V+Y + D ++ G I
Sbjct: 83 SEKIWR-----PDVVLYNNADGDFAIVKFTKVLLDYTGHIT 118
>2i14_A Nicotinate-nucleotide pyrophosphorylase; ligand binding,
phosphoribosylpyrophosphate, Zn metal ION, structural
genomics, PSI; HET: PCP; 2.90A {Pyrococcus furiosus}
SCOP: c.1.17.1 d.41.2.1
Length = 395
Score = 27.3 bits (61), Expect = 8.6
Identities = 5/17 (29%), Positives = 7/17 (41%)
Query: 275 AIRAALDAEGFQHVSIM 291
+R L G+ V I
Sbjct: 256 EVRWELKVRGYDWVKIF 272
>3kzh_A Probable sugar kinase; NYSGXRC, PSI-II, protein structure
initiative, modified lysin, structural genomics; HET:
BGC; 2.45A {Clostridium perfringens}
Length = 328
Score = 27.2 bits (61), Expect = 8.9
Identities = 7/40 (17%), Positives = 11/40 (27%), Gaps = 11/40 (27%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVG------AIRAALDAEG 284
A + AR G + +G +I G
Sbjct: 48 IAENMARVGVNT-----NFMSILGNDEHGKSIVEHSKKIG 82
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
0.317 0.133 0.400
Gapped
Lambda K H
0.267 0.0864 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,082,334
Number of extensions: 313351
Number of successful extensions: 996
Number of sequences better than 10.0: 1
Number of HSP's gapped: 957
Number of HSP's successfully gapped: 72
Length of query: 327
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 233
Effective length of database: 4,077,219
Effective search space: 949992027
Effective search space used: 949992027
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (25.5 bits)