RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 022731
(293 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 = 470 bits (1211), Expect = e-168
Identities = 143/274 (52%), Positives = 181/274 (66%), Gaps = 8/274 (2%)
Query: 1 MSVAYRPSHADATYDMKYGVRSVQGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAYV 60
M RPSHAD TY KYG+++ GGGR+SARETIGRVA GA+A+K L Q + EI+A+V
Sbjct: 96 MDKFPRPSHADFTYSEKYGIKASSGGGRASARETIGRVASGAIAEKFLAQNSNVEIVAFV 155
Query: 61 SQAHNVVLPEDVVDHEMLTLDQ-------VESNIVRCPDPEYAEKMIAAIDAVRVRGDSV 113
+Q + + D D E L +RCPD A M+ I+ R DS+
Sbjct: 156 TQIGEIKMNRDSFDPEFQHLLNTITREKVDSMGPIRCPDASVAGLMVKEIEKYRGNKDSI 215
Query: 114 GGVVTCIVRNCPRGLGSPVFDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEF 173
GGVVTC+VRN P GLG P FDKLEA LA AM+S+PA+KGFE+GSGF G + GS+HND F
Sbjct: 216 GGVVTCVVRNLPTGLGEPCFDKLEAMLAHAMLSIPASKGFEIGSGFQGVSVPGSKHNDPF 275
Query: 174 YTD-EFGNIRTRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIAR 232
Y + E +RT+TN SGG+QGGISNGE I + FK +TI ++Q T T + +E L A+
Sbjct: 276 YFEKETNRLRTKTNNSGGVQGGISNGENIYFSVPFKSVATISQEQKTATYDGEEGILAAK 335
Query: 233 GRHDPCVVPRAVPMVEAMVALVLMDQLMAQHAQC 266
GRHDP V PRA+P+VEAM ALVL D L+ Q A+
Sbjct: 336 GRHDPAVTPRAIPIVEAMTALVLADALLIQKARD 369
>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 = 459 bits (1183), Expect = e-164
Identities = 97/266 (36%), Positives = 141/266 (53%), Gaps = 9/266 (3%)
Query: 1 MSVAYRPSHADATYDMKYGVRSVQGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAYV 60
+ +RP+HAD TY KYG+R +GGGRSSARE++ RVA GAVA +L++F + + V
Sbjct: 95 LKDLFRPAHADFTYFYKYGIRDHRGGGRSSARESVARVAGGAVAAMLLREF-DICVQSGV 153
Query: 61 SQAHNVVLPEDVVDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCI 120
V + E + + + + C DP+ I R DSVG V
Sbjct: 154 FGVGTFVSN---LKEEEFDFEFAKKSEIFCLDPKLESDFKNEILNARNSKDSVGAAVFTK 210
Query: 121 VRNCPRGLGSPVFDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGN 180
V GLG ++DKL+++LA A+M + A K E+G G + + GS +ND +
Sbjct: 211 VSGMLIGLGEVLYDKLDSKLAHALMGINAVKAVEIGEGINASKMRGSCNNDALK-----D 265
Query: 181 IRTRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGRHDPCVV 240
+ +N SGGI GGISNGE + ++ FKPT +I KQ ++ + + +GRHDPCV
Sbjct: 266 GKFLSNHSGGILGGISNGENLILKTYFKPTPSIFAKQESIDKFGNNLKFELKGRHDPCVG 325
Query: 241 PRAVPMVEAMVALVLMDQLMAQHAQC 266
R + AMV LVL D L+ +
Sbjct: 326 VRGSVVASAMVRLVLADCLLLNASAN 351
>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 = 439 bits (1132), Expect = e-156
Identities = 98/271 (36%), Positives = 142/271 (52%), Gaps = 19/271 (7%)
Query: 1 MSVAYRPSHADATYDMKYGVRSVQGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAYV 60
+ +RPSHAD TY KYG+R +GGGRSSARE+ RVA GA AK +L++ G + +
Sbjct: 96 IKNLFRPSHADFTYFHKYGIRDFRGGGRSSARESAIRVAAGAFAKMLLREI-GIVCESGI 154
Query: 61 SQAHNVVLPEDVVDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCI 120
+ + + + + + D E E AI DS+GGV
Sbjct: 155 IEIGGI-------KAKNYDFNHALKSEIFALDEEQEEAQKTAIQNAIKNHDSIGGVALIR 207
Query: 121 VRNC------PRGLGSPVFDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFY 174
R+ P GLG ++ KL+A++A+AMM L K E+G G + L GSE+ND
Sbjct: 208 ARSIKTNQKLPIGLGQGLYAKLDAKIAEAMMGLNGVKAVEIGKGVESSLLKGSEYNDLMD 267
Query: 175 TDEFGNIRTRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGR 234
+NRSGG+ GG+SNGE I +R+ FKPT +I + Q T+ E E + +GR
Sbjct: 268 QK-----GFLSNRSGGVLGGMSNGEEIIVRVHFKPTPSIFQPQRTIDINGNECECLLKGR 322
Query: 235 HDPCVVPRAVPMVEAMVALVLMDQLMAQHAQ 265
HDPC+ R + E+++ALVL D ++
Sbjct: 323 HDPCIAIRGSVVCESLLALVLADMVLLNLTS 353
>4ecd_A Chorismate synthase; 4-layer sandwich, lyase; 2.50A
{Bifidobacterium longum subsp}
Length = 398
Score = 427 bits (1101), Expect = e-151
Identities = 95/280 (33%), Positives = 139/280 (49%), Gaps = 3/280 (1%)
Query: 1 MSVAYRPSHADATYDMKYGVRSVQGG-GRSSARETIGRVAPGAVAKKILKQFAGTEILAY 59
RP HAD T KYG + RSSARET RVA G VAK+ L Q G +A+
Sbjct: 109 PLSRPRPGHADLTGMRKYGFDDARPVLERSSARETASRVALGEVAKQFLDQAFGIRTVAH 168
Query: 60 VSQAHNVVLPEDVVDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTC 119
V V D+ L+ ++++ VR D E ++I I+ + D++GGV+
Sbjct: 169 VVALGGVQTNPDLPLPTPDDLEALDASPVRTLDKEAEVRIIERINEAKKAADTLGGVIEV 228
Query: 120 IVRNCPRGLGSPVFD--KLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDE 177
+ P G+G+ V +L+A LA A+M + A KG E+G GF GS+ +DE +
Sbjct: 229 LAYGVPAGIGTYVESDRRLDAALASAIMGIQAFKGVEIGDGFLAASRPGSQAHDEIVVNA 288
Query: 178 FGNIRTRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGRHDP 237
G I +NR+GGI+GG+SNG++I +R A KP +I + TV E+ R D
Sbjct: 289 DGRIDRLSNRAGGIEGGMSNGQVIRVRGAMKPIPSIPKALRTVDVLTGESAQAINQRSDS 348
Query: 238 CVVPRAVPMVEAMVALVLMDQLMAQHAQCHLFPINPDLQG 277
VP A + EAMV L L + + + +L+
Sbjct: 349 TAVPAASVVAEAMVRLTLAKYALDKFGGDSVAETRRNLES 388
>2o11_A Chorismate synthase; shikimate pathway, LYA; 1.65A {Mycobacterium
tuberculosis} PDB: 2o12_A* 2qhf_A 2g85_A 1ztb_A
Length = 407
Score = 419 bits (1080), Expect = e-148
Identities = 98/268 (36%), Positives = 138/268 (51%), Gaps = 5/268 (1%)
Query: 4 AYRPSHADATYDMKYGVRSVQGG-GRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQ 62
RP HAD +KYG + R+SARET RVA G VA+ L+Q G E+L++V
Sbjct: 110 RPRPGHADYAGMLKYGFDDARPVLERASARETAARVAAGTVARAFLRQALGVEVLSHVIS 169
Query: 63 AHNVVLPEDVVDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVR 122
E L ++++ VR D MIA I+A + GD++GGVV +
Sbjct: 170 IGASAPYEGP-PPRAEDLPAIDASPVRAYDKAAEADMIAQIEAAKKDGDTLGGVVEAVAL 228
Query: 123 NCPRGLGSPVF--DKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGN 180
P GLGS +L+++LA A+M + A KG E+G GF GS +DE Y G
Sbjct: 229 GLPVGLGSFTSGDHRLDSQLAAAVMGIQAIKGVEIGDGFQTARRRGSRAHDEMYPGPDG- 287
Query: 181 IRTRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGRHDPCVV 240
+ TNR+GG++GG++NG+ + +R A KP ST+ R TV + + R D C V
Sbjct: 288 VVRSTNRAGGLEGGMTNGQPLRVRAAMKPISTVPRALATVDLATGDEAVAIHQRSDVCAV 347
Query: 241 PRAVPMVEAMVALVLMDQLMAQHAQCHL 268
P A +VE MVALVL + + L
Sbjct: 348 PAAGVVVETMVALVLARAALEKFGGDSL 375
>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 = 410 bits (1056), Expect = e-144
Identities = 96/283 (33%), Positives = 141/283 (49%), Gaps = 11/283 (3%)
Query: 5 YRPSHADATYDMKYGVRSVQG-GGRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQA 63
RP HAD + +KY R ++ R+SARET RVA GAV KK L +F G +I ++V
Sbjct: 112 PRPGHADLSGGIKYNQRDLRNILERASARETAARVAVGAVCKKFLSEF-GIKIGSFVVSI 170
Query: 64 HNVVLPEDVVDHEMLT-------LDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGV 116
+ E ++ E + +R P PE E+ ID V+ +G+S+GGV
Sbjct: 171 GQKEVEELKDKSYFANPEKLLSYHEKAEDSELRIPFPEKDEEFKTYIDEVKEKGESLGGV 230
Query: 117 VTCIVRNCPRGLGSPVF--DKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFY 174
N P GLGS + +++ +A+AMMS+ A KG E+G GF GS+ +DE
Sbjct: 231 FEVFALNVPPGLGSHIQWDRRIDGRIAQAMMSIQAIKGVEIGLGFEAARRFGSQVHDEIG 290
Query: 175 TDEFGNIRTRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGR 234
E +N GG +GGI+NG I +R+A KP T+ +V E KE + R
Sbjct: 291 WSEGKGYFRHSNNLGGTEGGITNGMPIVVRVAMKPIPTLKNPLRSVDIETKEEMKAGKER 350
Query: 235 HDPCVVPRAVPMVEAMVALVLMDQLMAQHAQCHLFPINPDLQG 277
D VP A + EAM+A+VL D L+ + + + +
Sbjct: 351 TDIVAVPAASVVGEAMLAIVLADALLEKLGGDFMEEVKKRFED 393
>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 = 406 bits (1046), Expect = e-143
Identities = 90/276 (32%), Positives = 137/276 (49%), Gaps = 4/276 (1%)
Query: 5 YRPSHADATYDMKYGVRSVQGG-GRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQA 63
RP HAD +KY ++ RSSARET RVA GAVAK++L + EI +V
Sbjct: 106 PRPGHADLVGGIKYRFDDLRNSLERSSARETTMRVAVGAVAKRLLAEL-DMEIANHVVVF 164
Query: 64 HNVVLPEDVVDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRN 123
+ + + V + E +++ ID ++ GD++GGVV +V
Sbjct: 165 GGKEIDVPENLTVAEIKQRAAQSEVSIVNQEREQEIKDYIDQIKRDGDTIGGVVETVVGG 224
Query: 124 CPRGLGSPV--FDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNI 181
P GLGS V KL+A LA+A++S+ A KG E G GF + GS+ DE +
Sbjct: 225 VPVGLGSYVQWDRKLDARLAQAVVSINAFKGVEFGLGFEAGYRKGSQVMDEILWSKEDGY 284
Query: 182 RTRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGRHDPCVVP 241
RTN GG +GG++NG+ I +R KP T+ + +V E E R DP +P
Sbjct: 285 TRRTNNLGGFEGGMTNGQPIVVRGVMKPIPTLYKPLMSVDIETHEPYKATVERSDPTALP 344
Query: 242 RAVPMVEAMVALVLMDQLMAQHAQCHLFPINPDLQG 277
A ++EA+VA VL +++ + + +L + +
Sbjct: 345 AAGMVMEAVVATVLAQEILEKFSSDNLEELKEAVAK 380
>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 = 39.1 bits (90), Expect = 0.002
Identities = 30/219 (13%), Positives = 61/219 (27%), Gaps = 56/219 (25%)
Query: 73 VDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNCPRGLGSP- 131
+D E +I+ + + + D V+ D +++ + S
Sbjct: 7 MDFETGEHQYQYKDIL----SVFEDAFVDNFDCKDVQ-DMPKSILS--KEEIDHIIMSKD 59
Query: 132 -------VFDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTR 184
+F L +K E+ F L N +F I+T
Sbjct: 60 AVSGTLRLFWTLL------------SKQEEMVQKFVEEVL---RINYKFLMSP---IKTE 101
Query: 185 TNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETEL---IARGRHDPCVVP 241
Q + I R + + K N V+R + +L + R V+
Sbjct: 102 QR-----QPSMMTRMYIEQRDRLYNDNQVFAKYN-VSRLQPYLKLRQALLELRPAKNVL- 154
Query: 242 RAVPMVEAM--------VALVLMDQLMAQHAQCHLFPIN 272
++ + V + + +F +N
Sbjct: 155 -----IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.8 bits (71), Expect = 0.12
Identities = 7/17 (41%), Positives = 10/17 (58%), Gaps = 4/17 (23%)
Query: 275 LQGTMKL--PELEPAPA 289
LQ ++KL + APA
Sbjct: 25 LQASLKLYAD--DSAPA 39
>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 = 31.9 bits (72), Expect = 0.26
Identities = 22/117 (18%), Positives = 39/117 (33%), Gaps = 45/117 (38%)
Query: 94 EY------AEKMI--AAIDAVRVRGDSVGGVVTCIVRNCPRGLGSPVFDKLEAELAKAMM 145
EY A+ M + ++ V RG ++ V PR EL ++
Sbjct: 1766 EYAALASLADVMSIESLVEVVFYRGMTMQVAV-------PRD-----------ELGRSNY 1807
Query: 146 SLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTRTNRSGGIQGGISNGEIIN 202
+ A V + F S+ ++ + G R+G + EI+N
Sbjct: 1808 GMIAINPGRVAASF-------SQEALQYVVERVG------KRTGWLV------EIVN 1845
>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 = 28.2 bits (62), Expect = 3.0
Identities = 14/74 (18%), Positives = 28/74 (37%), Gaps = 5/74 (6%)
Query: 82 QVESNIVRCPDPEYAEKMIAAIDAVRVRGDS-----VGGVVTCIVRNCPRGLGSPVFDKL 136
Q ES+ + Y +K++ I+A+R + + G + + G G ++ +
Sbjct: 118 QGESDSLNGNYKVYYKKLLLIIEALRKELNVPDIPIIIGGLGDFLGKERFGKGCTEYNFI 177
Query: 137 EAELAKAMMSLPAT 150
EL K
Sbjct: 178 NKELQKFAFEQDNC 191
>3but_A Uncharacterized protein AF_0446; lipid binding protein, beta
barrel, protein structure initia PSI-2; 1.91A
{Archaeoglobus fulgidus dsm 4304}
Length = 136
Score = 26.5 bits (58), Expect = 6.1
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 195 ISNGEIINMRIAFKPTSTIGRKQNTV---TREKK-ETELIARGRHD 236
I+NGE +R+A KPT IG + V RE + T+L++ G H
Sbjct: 88 IANGEKTKIRVAIKPTIEIGGRDVEVPVFLRESEFTTKLLSEGHHH 133
>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 = 26.3 bits (58), Expect = 9.8
Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 16 MKYGVRSV------QGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAHNVVLP 69
KYG+R + + G A +G ++ G + + + AG+ + + V N+V P
Sbjct: 78 PKYGIRGIPTLLLFKNG--EVAATKVGALSKGQLKEFLDANLAGSAMESTVMVLRNMVDP 135
Query: 70 EDVVD 74
+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
0.318 0.134 0.390
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: 4,568,681
Number of extensions: 285473
Number of successful extensions: 576
Number of sequences better than 10.0: 1
Number of HSP's gapped: 554
Number of HSP's successfully gapped: 17
Length of query: 293
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 200
Effective length of database: 4,105,140
Effective search space: 821028000
Effective search space used: 821028000
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: 57 (25.6 bits)