RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 017617
(368 letters)
>1r53_A Chorismate synthase; two layers alpha-beta, lyase; 2.20A
{Saccharomyces cerevisiae} SCOP: d.258.1.1 PDB: 1r52_A
Length = 382
Score = 559 bits (1444), Expect = 0.0
Identities = 170/318 (53%), Positives = 212/318 (66%), Gaps = 8/318 (2%)
Query: 55 SAFGTYFRVTTFGESHGGGVGCIIDGCPPRIPLSEADMQVDLDRRRPGQSRITTPRKETD 114
S FG FRVTT+GESH VGCI+DG PP + L+EAD+Q L RRRPGQS+++TPR E D
Sbjct: 2 STFGKLFRVTTYGESHCKSVGCIVDGVPPGMSLTEADIQPQLTRRRPGQSKLSTPRDEKD 61
Query: 115 TCKIYSGVSEGVTTGTPIHVFVPNTDQRGHDYSEMSVAYRPSHADATYDMKYGVRSVQGG 174
+I SG G T GTPI + + N DQR HDYS+M RPSHAD TY KYG+++ GG
Sbjct: 62 RVEIQSGTEFGKTLGTPIAMMIKNEDQRPHDYSDMDKFPRPSHADFTYSEKYGIKASSGG 121
Query: 175 GRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAHNVVLPEDVVDHEMLTLDQ---- 230
GR+SARETIGRVA GA+A+K L Q + EI+A+V+Q + + D D E L
Sbjct: 122 GRASARETIGRVASGAIAEKFLAQNSNVEIVAFVTQIGEIKMNRDSFDPEFQHLLNTITR 181
Query: 231 ---VESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNCPRGLGSPVFDKLEAE 287
+RCPD A M+ I+ R DS+GGVVTC+VRN P GLG P FDKLEA
Sbjct: 182 EKVDSMGPIRCPDASVAGLMVKEIEKYRGNKDSIGGVVTCVVRNLPTGLGEPCFDKLEAM 241
Query: 288 LAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTD-EFGNIRTRTNRSGGIQGGISNG 346
LA AM+S+PA+KGFE+GSGF G + GS+HND FY + E +RT+TN SGG+QGGISNG
Sbjct: 242 LAHAMLSIPASKGFEIGSGFQGVSVPGSKHNDPFYFEKETNRLRTKTNNSGGVQGGISNG 301
Query: 347 EIINMRIAFKPTSTIGVK 364
E I + FK +TI +
Sbjct: 302 ENIYFSVPFKSVATISQE 319
>1sq1_A Chorismate synthase; structural genomics, bifunctional alpha/beta
tetrameric PROT protein structure initiative; 2.80A
{Campylobacter jejuni} SCOP: d.258.1.1
Length = 370
Score = 543 bits (1402), Expect = 0.0
Identities = 125/310 (40%), Positives = 175/310 (56%), Gaps = 10/310 (3%)
Query: 55 SAFGTYFRVTTFGESHGGGVGCIIDGCPPRIPLSEADMQVDLDRRRPGQSRITTPRKETD 114
+ FGT + T+FGESHG VGCIIDG P + E +Q +LD+R+ G S+ TPRKE+D
Sbjct: 2 NTFGTRLKFTSFGESHGVAVGCIIDGMPAGVKFDEEFLQNELDKRK-GGSKFATPRKESD 60
Query: 115 TCKIYSGVSEGVTTGTPIHVFVPNTDQRGHDYSEMSVAYRPSHADATYDMKYGVRSVQGG 174
++ SGV EG TTG PI + V N + DY + +RP+HAD TY KYG+R +GG
Sbjct: 61 KAQVLSGVFEGYTTGHPIAIVVFNENAHSKDYDNLKDLFRPAHADFTYFYKYGIRDHRGG 120
Query: 175 GRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAHNVVLPEDVVDHEMLTLDQVESN 234
GRSSARE++ RVA GAVA +L++F + + V V + E + + +
Sbjct: 121 GRSSARESVARVAGGAVAAMLLREF-DICVQSGVFGVGTFVSN---LKEEEFDFEFAKKS 176
Query: 235 IVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNCPRGLGSPVFDKLEAELAKAMMS 294
+ C DP+ I R DSVG V V GLG ++DKL+++LA A+M
Sbjct: 177 EIFCLDPKLESDFKNEILNARNSKDSVGAAVFTKVSGMLIGLGEVLYDKLDSKLAHALMG 236
Query: 295 LPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTRTNRSGGIQGGISNGEIINMRIA 354
+ A K E+G G + + GS +ND + + +N SGGI GGISNGE + ++
Sbjct: 237 INAVKAVEIGEGINASKMRGSCNNDALK-----DGKFLSNHSGGILGGISNGENLILKTY 291
Query: 355 FKPTSTIGVK 364
FKPT +I K
Sbjct: 292 FKPTPSIFAK 301
>1um0_A Chorismate synthase; beta-alpha-beta sandwich fold, lyase; HET:
FMN; 1.95A {Helicobacter pylori} SCOP: d.258.1.1 PDB:
1umf_A
Length = 365
Score = 535 bits (1381), Expect = 0.0
Identities = 120/316 (37%), Positives = 170/316 (53%), Gaps = 19/316 (6%)
Query: 55 SAFGTYFRVTTFGESHGGGVGCIIDGCPPRIPLSEADMQVDLDRRRPGQSRITTPRKETD 114
+ G + R+TTFGESHG +G ++DG P I + A ++ ++ RR+ G++ TPRKE D
Sbjct: 2 NTLGRFLRLTTFGESHGDVIGGVLDGMPSGIKIDYALLENEMKRRQGGRNVFITPRKEDD 61
Query: 115 TCKIYSGVSEGVTTGTPIHVFVPNTDQRGHDYSEMSVAYRPSHADATYDMKYGVRSVQGG 174
+I SGV E +TGTPI + N R DY + +RPSHAD TY KYG+R +GG
Sbjct: 62 KVEITSGVFEDFSTGTPIGFLIHNQRARSKDYDNIKNLFRPSHADFTYFHKYGIRDFRGG 121
Query: 175 GRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAHNVVLPEDVVDHEMLTLDQVESN 234
GRSSARE+ RVA GA AK +L++ G + + + + + + +
Sbjct: 122 GRSSARESAIRVAAGAFAKMLLREI-GIVCESGIIEIGG-------IKAKNYDFNHALKS 173
Query: 235 IVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNC------PRGLGSPVFDKLEAEL 288
+ D E E AI DS+GGV R+ P GLG ++ KL+A++
Sbjct: 174 EIFALDEEQEEAQKTAIQNAIKNHDSIGGVALIRARSIKTNQKLPIGLGQGLYAKLDAKI 233
Query: 289 AKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTRTNRSGGIQGGISNGEI 348
A+AMM L K E+G G + L GSE+ND +NRSGG+ GG+SNGE
Sbjct: 234 AEAMMGLNGVKAVEIGKGVESSLLKGSEYNDLMDQK-----GFLSNRSGGVLGGMSNGEE 288
Query: 349 INMRIAFKPTSTIGVK 364
I +R+ FKPT +I
Sbjct: 289 IIVRVHFKPTPSIFQP 304
>4ecd_A Chorismate synthase; 4-layer sandwich, lyase; 2.50A
{Bifidobacterium longum subsp}
Length = 398
Score = 492 bits (1269), Expect = e-175
Identities = 108/323 (33%), Positives = 160/323 (49%), Gaps = 19/323 (5%)
Query: 58 GTYFRVTTFGESHGGGVGCIIDGCPPRIPLSEADMQVDLDRRRPGQSRITTPRKETDTCK 117
R T GESHG + +I+G P + +S D+ L RRR G R + E D +
Sbjct: 2 NAMLRWQTAGESHGEALVAMIEGLPAGVRISTDDIVSALARRRLGYGRGARMKFEQDKVR 61
Query: 118 IYSGVSEGVTTGTPIHVFVPNTDQRGHDYS----------------EMSVAYRPSHADAT 161
+ +GV G+T G+P+ + + NT+ RP HAD T
Sbjct: 62 LLTGVRHGLTLGSPVAIEIANTEWPKWTEVMSADALDHDLPREGRNAPLSRPRPGHADLT 121
Query: 162 YDMKYGVRSVQGG-GRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAHNVVLPEDV 220
KYG + RSSARET RVA G VAK+ L Q G +A+V V D+
Sbjct: 122 GMRKYGFDDARPVLERSSARETASRVALGEVAKQFLDQAFGIRTVAHVVALGGVQTNPDL 181
Query: 221 VDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNCPRGLGSPV 280
L+ ++++ VR D E ++I I+ + D++GGV+ + P G+G+ V
Sbjct: 182 PLPTPDDLEALDASPVRTLDKEAEVRIIERINEAKKAADTLGGVIEVLAYGVPAGIGTYV 241
Query: 281 FD--KLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTRTNRSGG 338
+L+A LA A+M + A KG E+G GF GS+ +DE + G I +NR+GG
Sbjct: 242 ESDRRLDAALASAIMGIQAFKGVEIGDGFLAASRPGSQAHDEIVVNADGRIDRLSNRAGG 301
Query: 339 IQGGISNGEIINMRIAFKPTSTI 361
I+GG+SNG++I +R A KP +I
Sbjct: 302 IEGGMSNGQVIRVRGAMKPIPSI 324
>1q1l_A Chorismate synthase; beta alpha beta sandwich, structural genomics,
PSI, protein structure initiative, midwest center for
structural genomics; 2.05A {Aquifex aeolicus} SCOP:
d.258.1.1
Length = 401
Score = 480 bits (1239), Expect = e-171
Identities = 115/328 (35%), Positives = 163/328 (49%), Gaps = 22/328 (6%)
Query: 55 SAFGTYFRVTTFGESHGGGVGCIIDGCPPRIPLSEADMQVDLDRRRPGQSRITTPRKETD 114
Y R T GESHG G+ I++G P +PLSE ++ +L RR+ G R + E D
Sbjct: 3 HMSLRYLRFLTAGESHGKGLTAILEGIPANLPLSEEEINHELRRRQRGYGRGGRMKIEKD 62
Query: 115 TCKIYSGVSEGVTTGTPIHVFVPNTDQRGHDY-----------SEMSVAYRPSHADATYD 163
T +I SGV G T G+PI +F+ N D RP HAD +
Sbjct: 63 TAEILSGVRFGKTLGSPIALFIRNRDWENWKEKMAIEGEPSPSVVPFTRPRPGHADLSGG 122
Query: 164 MKYGVRSVQG-GGRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAHNVVLPEDVVD 222
+KY R ++ R+SARET RVA GAV KK L +F G +I ++V + E
Sbjct: 123 IKYNQRDLRNILERASARETAARVAVGAVCKKFLSEF-GIKIGSFVVSIGQKEVEELKDK 181
Query: 223 HEMLT-------LDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNCPRG 275
++ E + +R P PE E+ ID V+ +G+S+GGV N P G
Sbjct: 182 SYFANPEKLLSYHEKAEDSELRIPFPEKDEEFKTYIDEVKEKGESLGGVFEVFALNVPPG 241
Query: 276 LGSPVF--DKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTRT 333
LGS + +++ +A+AMMS+ A KG E+G GF GS+ +DE E +
Sbjct: 242 LGSHIQWDRRIDGRIAQAMMSIQAIKGVEIGLGFEAARRFGSQVHDEIGWSEGKGYFRHS 301
Query: 334 NRSGGIQGGISNGEIINMRIAFKPTSTI 361
N GG +GGI+NG I +R+A KP T+
Sbjct: 302 NNLGGTEGGITNGMPIVVRVAMKPIPTL 329
>2o11_A Chorismate synthase; shikimate pathway, LYA; 1.65A {Mycobacterium
tuberculosis} PDB: 2o12_A* 2qhf_A 2g85_A 1ztb_A
Length = 407
Score = 480 bits (1237), Expect = e-170
Identities = 109/321 (33%), Positives = 160/321 (49%), Gaps = 22/321 (6%)
Query: 61 FRVTTFGESHGGGVGCIIDGCPPRIPLSEADMQVDLDRRRPGQSRITTPRKETDTCKIYS 120
R T GESHG + +++G + ++ AD+ L RRR G R E D + S
Sbjct: 2 LRWITAGESHGRALVAVVEGMVAGVHVTSADIADQLARRRLGYGRGARMTFERDAVTVLS 61
Query: 121 GVSEGVTTGTPIHVFVPNTDQRGH---------DYSEMS--------VAYRPSHADATYD 163
G+ G T G PI + + NT+ D +E++ RP HAD
Sbjct: 62 GIRHGSTLGGPIAIEIGNTEWPKWETVMAADPVDPAELADVARNAPLTRPRPGHADYAGM 121
Query: 164 MKYGVRSVQGG-GRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAHNVVLPEDVVD 222
+KYG + R+SARET RVA G VA+ L+Q G E+L++V E
Sbjct: 122 LKYGFDDARPVLERASARETAARVAAGTVARAFLRQALGVEVLSHVISIGASAPYEG-PP 180
Query: 223 HEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNCPRGLGSPVF- 281
L ++++ VR D MIA I+A + GD++GGVV + P GLGS
Sbjct: 181 PRAEDLPAIDASPVRAYDKAAEADMIAQIEAAKKDGDTLGGVVEAVALGLPVGLGSFTSG 240
Query: 282 -DKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTRTNRSGGIQ 340
+L+++LA A+M + A KG E+G GF GS +DE Y G + TNR+GG++
Sbjct: 241 DHRLDSQLAAAVMGIQAIKGVEIGDGFQTARRRGSRAHDEMYPGPDG-VVRSTNRAGGLE 299
Query: 341 GGISNGEIINMRIAFKPTSTI 361
GG++NG+ + +R A KP ST+
Sbjct: 300 GGMTNGQPLRVRAAMKPISTV 320
>1qxo_A Chorismate synthase; beta-alpha-beta, flavoprotein, shikimate,
anti-infective, lyase; HET: FMN EPS; 2.00A
{Streptococcus pneumoniae} SCOP: d.258.1.1
Length = 388
Score = 463 bits (1195), Expect = e-164
Identities = 110/316 (34%), Positives = 152/316 (48%), Gaps = 17/316 (5%)
Query: 62 RVTTFGESHGGGVGCIIDGCPPRIPLSEADMQVDLDRRRPGQSRITTPRKETDTCKIYSG 121
R T GESHG + II+G P +PL+ D+ DL RR+ G R + E D SG
Sbjct: 2 RYLTAGESHGPRLTAIIEGIPAGLPLTAEDINEDLRRRQGGYGRGGRMKIENDQVVFTSG 61
Query: 122 VSEGVTTGTPIHVFVPNTDQRG-HDYSEMS------------VAYRPSHADATYDMKYGV 168
V G TTG PI + V N D + D RP HAD +KY
Sbjct: 62 VRHGKTTGAPITMDVINKDHQKWLDIMSAEDIEDRLKSKRKITHPRPGHADLVGGIKYRF 121
Query: 169 RSVQGG-GRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAHNVVLPEDVVDHEMLT 227
++ RSSARET RVA GAVAK++L + EI +V +
Sbjct: 122 DDLRNSLERSSARETTMRVAVGAVAKRLLAEL-DMEIANHVVVFGGKEIDVPENLTVAEI 180
Query: 228 LDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNCPRGLGSPV--FDKLE 285
+ + V + E +++ ID ++ GD++GGVV +V P GLGS V KL+
Sbjct: 181 KQRAAQSEVSIVNQEREQEIKDYIDQIKRDGDTIGGVVETVVGGVPVGLGSYVQWDRKLD 240
Query: 286 AELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTRTNRSGGIQGGISN 345
A LA+A++S+ A KG E G GF + GS+ DE + RTN GG +GG++N
Sbjct: 241 ARLAQAVVSINAFKGVEFGLGFEAGYRKGSQVMDEILWSKEDGYTRRTNNLGGFEGGMTN 300
Query: 346 GEIINMRIAFKPTSTI 361
G+ I +R KP T+
Sbjct: 301 GQPIVVRGVMKPIPTL 316
>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 = 33.1 bits (75), Expect = 0.15
Identities = 23/144 (15%), Positives = 46/144 (31%), Gaps = 53/144 (36%)
Query: 242 EY------AEKMI--AAIDAVRVRGDSVGGVVTCIVRNCPRGLGSPVFDKLEAELAKAMM 293
EY A+ M + ++ V RG ++ V PR EL ++
Sbjct: 1766 EYAALASLADVMSIESLVEVVFYRGMTMQVAV-------PRD-----------ELGRSNY 1807
Query: 294 SLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTRTNRSGGI-QGGISN------- 345
+ A V + F S+ ++ + G R+G + + I N
Sbjct: 1808 GMIAINPGRVAASF-------SQEALQYVVERVG------KRTGWLVE--IVNYNVENQQ 1852
Query: 346 ----GEIINMRIAFKPTSTIGVKN 365
G++ + + I ++
Sbjct: 1853 YVAAGDLRALDTVTNVLNFIKLQK 1876
>1zmb_A Acetylxylan esterase related enzyme; alpha-beta protein, structural
genomics, PSI, protein struct initiative; 2.61A
{Clostridium acetobutylicum} SCOP: c.23.10.7
Length = 290
Score = 29.0 bits (64), Expect = 2.4
Identities = 14/74 (18%), Positives = 28/74 (37%), Gaps = 5/74 (6%)
Query: 230 QVESNIVRCPDPEYAEKMIAAIDAVRVRGDS-----VGGVVTCIVRNCPRGLGSPVFDKL 284
Q ES+ + Y +K++ I+A+R + + G + + G G ++ +
Sbjct: 118 QGESDSLNGNYKVYYKKLLLIIEALRKELNVPDIPIIIGGLGDFLGKERFGKGCTEYNFI 177
Query: 285 EAELAKAMMSLPAT 298
EL K
Sbjct: 178 NKELQKFAFEQDNC 191
>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, alternative
splicing, FBP interacting repressor, RRM, electron
transport; 2.20A {Escherichia coli O157}
Length = 222
Score = 27.1 bits (60), Expect = 8.0
Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 164 MKYGVRSV------QGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAHNVVLP 217
KYG+R + + G A +G ++ G + + + AG+ + + V N+V P
Sbjct: 78 PKYGIRGIPTLLLFKNG--EVAATKVGALSKGQLKEFLDANLAGSAMESTVMVLRNMVDP 135
Query: 218 EDVVD 222
+D+ D
Sbjct: 136 KDIDD 140
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 0.135 0.391
Gapped
Lambda K H
0.267 0.0816 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,743,892
Number of extensions: 364352
Number of successful extensions: 757
Number of sequences better than 10.0: 1
Number of HSP's gapped: 716
Number of HSP's successfully gapped: 16
Length of query: 368
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 273
Effective length of database: 4,049,298
Effective search space: 1105458354
Effective search space used: 1105458354
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 (21.7 bits)
S2: 58 (26.0 bits)