RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14077
(296 letters)
>3ocr_A Class II aldolase/adducin domain protein; PSI-2, midwest center
for structural genomics, protein struc initiative,
MCSG, lyase; 1.95A {Pseudomonas syringae PV}
Length = 273
Score = 66.2 bits (162), Expect = 7e-13
Identities = 21/38 (55%), Positives = 30/38 (78%)
Query: 1 ARLNVDEEIFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
AR+ +E FL+N GLL++EITAS+LVKVD+ G I++
Sbjct: 60 ARVPGPDEHFLINAFGLLFDEITASNLVKVDIDGTIVD 97
>2z7b_A MLR6791 protein; class II aldolase superfamily, lyase; 1.90A
{Mesorhizobium loti}
Length = 270
Score = 51.7 bits (124), Expect = 6e-08
Identities = 8/38 (21%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 1 ARLNVDEEIFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
AR D F + L + IT + + ++ G+ +
Sbjct: 66 ARDPEDPASFFLAQ-KLAPSLITVDDIQRFNLDGETSD 102
>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 = 43.9 bits (103), Expect = 5e-05
Identities = 36/143 (25%), Positives = 46/143 (32%), Gaps = 42/143 (29%)
Query: 93 GSPTHSS--TPV--KIDSALQFVPKNTNPKEFK-------------KLQQQIKENRRADK 135
SP HS P I+ L + N K+ + L I E R D
Sbjct: 424 ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISE-RIVDC 482
Query: 136 ITSGPQSQLLEGVSWEEAKKLQDANQSATGDQVILV---GAASKELKSLAKKLQDANQSA 192
I P V WE + AT IL G AS L L + +D
Sbjct: 483 IIRLP-------VKWETTTQF-----KATH---ILDFGPGGASG-LGVLTHRNKDG---- 522
Query: 193 TGDQVILVGAASKGII-QRGFQH 214
TG +VI+ G GF+
Sbjct: 523 TGVRVIVAGTLDINPDDDYGFKQ 545
Score = 41.2 bits (96), Expect = 3e-04
Identities = 37/214 (17%), Positives = 67/214 (31%), Gaps = 55/214 (25%)
Query: 7 EEIFLVNPHGLLYNEITASSLVKVDMRGDIIEPVLGLWL-----SRVEALA--LAMVSCI 59
E + LV P + AS L + + EP G + E + L VS
Sbjct: 17 EHVLLV-PTASFFI---ASQL-QEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVS-- 69
Query: 60 TRLQPRPWSKWICEETSSNLWVEANSDAEWVADGSPTHSSTPVKIDSALQFVPKNTNPKE 119
+ ++P ++ ++ + E + +G+ H+ A + + +N
Sbjct: 70 SLVEPSKVGQF--DQVLNLCLTEFENC---YLEGNDIHAL-------AAKLLQEN--DTT 115
Query: 120 FKKLQQQIKENRRA-----DKITSGPQSQLLEGVS-------------------WEEAKK 155
K ++ IK A S L V +EE +
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
Query: 156 LQDANQSATGDQVILVGAASKELKSLAKKLQDAN 189
L GD L+ +++ L L + DA
Sbjct: 176 LYQTYHVLVGD---LIKFSAETLSELIRTTLDAE 206
Score = 40.8 bits (95), Expect = 5e-04
Identities = 41/278 (14%), Positives = 84/278 (30%), Gaps = 106/278 (38%)
Query: 48 VEALALAM-----------VSCITRLQPRPWSKWI---CEET--SSNLWVEANSDAEWVA 91
V A+A+A IT +I C E +++L D+
Sbjct: 278 VTAVAIAETDSWESFFVSVRKAIT------VLFFIGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 92 DGSPTHSSTPVKIDSALQFVPKNTNPKEFKKLQQQIKE-NRRADKITSGPQSQLLEGVSW 150
+G P+ N ++ +Q + + N + P + +E +S
Sbjct: 332 EGVPSP-----------MLSISNLTQEQ---VQDYVNKTN------SHLPAGKQVE-IS- 369
Query: 151 EEAKKLQDANQSATGDQVILVGAASKELKSLAKKLQDANQSATGDQVILVGAASKGII-- 208
L N +++ G + L L L+ A + DQ S+ I
Sbjct: 370 -----L--VN---GAKNLVVSGPP-QSLYGLNLTLRKAKAPSGLDQ-------SR--IPF 409
Query: 209 -QRG--FQHN----ATVYKTPYAKNPFDQMTD--QEIEEYKSTVSRKQRGEFSYDDSESE 259
+R F + A+ + + + I + D ++
Sbjct: 410 SERKLKFSNRFLPVASPFHSHL-------LVPASDLINK---------------DLVKNN 447
Query: 260 ALSSSAALPPRAGTKPPVSETDDES--RDEADLMQDSL 295
++ + + PV +T D S R + + + +
Sbjct: 448 VSFNAKDI------QIPVYDTFDGSDLRVLSGSISERI 479
>1e4c_P L-fuculose 1-phosphate aldolase; aldolase (class II), bacterial
L-fucose metabolism; 1.66A {Escherichia coli} SCOP:
c.74.1.1 PDB: 1fua_A 2fua_A 3fua_A 4fua_A* 1dzv_P
1e4b_P 1e47_P* 1e48_P* 1dzz_P 1e46_P 1dzu_P 1dzy_P
1dzx_P 1dzw_P 1e49_P 1e4a_P
Length = 215
Score = 41.1 bits (97), Expect = 1e-04
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 6 DEEIFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
++ L+ P G+ Y ++T S +V +D G E
Sbjct: 34 YQDGMLITPTGIPYEKLTESHIVFIDGNGKHEE 66
>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 = 37.5 bits (86), Expect = 0.006
Identities = 34/220 (15%), Positives = 71/220 (32%), Gaps = 69/220 (31%)
Query: 38 EPVLGLWLS------RVEA-----LALAMVSCITRLQPRPWSKWICEETSSNLWVEANSD 86
+ +L +L E L++++ ++ + W + W N D
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIA--ESIRDGL-ATW-------DNWKHVNCD 353
Query: 87 AEWVADGSPTHSSTPVKIDSALQFVPKNTNPKEFKKLQQQI---KENRRADKITSGPQSQ 143
++ I+S+L P E++K+ ++ + I +
Sbjct: 354 K---------LTTI---IESSL----NVLEPAEYRKMFDRLSVFPPSA---HIP----TI 390
Query: 144 LLEGVSWEEAKKLQDANQSATGDQVILVGAASKEL--KSLAKKLQDANQSATGDQVILVG 201
LL + W + K D V++ +L SL +K +S I +
Sbjct: 391 LLS-LIWFDVIK-SD-------VMVVV-----NKLHKYSLVEK--QPKESTISIPSIYLE 434
Query: 202 AASKGIIQRGFQHNATV--YKTPYAKNPFDQMTDQEIEEY 239
K + H + V Y P + D + +++Y
Sbjct: 435 LKVK-LENEYALHRSIVDHYNIPKTFDSDD-LIPPYLDQY 472
>2fk5_A Fuculose-1-phosphate aldolase; class II aldolase, metal binding,
riken structural genomics/proteomics initiative, RSGI,
NPPSFA; 1.90A {Thermus thermophilus} PDB: 2flf_A
Length = 200
Score = 36.1 bits (84), Expect = 0.006
Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 3/38 (7%)
Query: 4 NV---DEEIFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
N + FL+ G+ +T L++V + G I E
Sbjct: 28 NFSVRTKGGFLITKSGVQKARLTPEDLLEVPLEGPIPE 65
>2opi_A L-fuculose-1-phosphate aldolase; L-fuculose-1-phosphate aldolas
structural genomics, PSI-2, protein structure
initiative; 2.50A {Bacteroides thetaiotaomicron}
Length = 212
Score = 34.2 bits (79), Expect = 0.031
Identities = 4/38 (10%), Positives = 11/38 (28%), Gaps = 3/38 (7%)
Query: 4 NV---DEEIFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
N+ E L++ G + + ++
Sbjct: 29 NLSWRIGEEALISGTGSWVPTLAKEKVSICNIASGTPT 66
>2irp_A Putative aldolase class 2 protein AQ_1979; aldehyde, enzymatic
mechanism; 2.40A {Aquifex aeolicus}
Length = 208
Score = 32.6 bits (75), Expect = 0.098
Identities = 7/34 (20%), Positives = 14/34 (41%)
Query: 5 VDEEIFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
V EE + G ++T ++ +D G +
Sbjct: 40 VSEEYIAITASGKHKGKLTPEDILLIDYEGRPVG 73
>1k0w_A L-ribulose 5 phosphate 4-epimerase; aldolase, isomerase; 2.10A
{Escherichia coli} SCOP: c.74.1.1 PDB: 1jdi_A
Length = 231
Score = 31.6 bits (72), Expect = 0.22
Identities = 8/32 (25%), Positives = 18/32 (56%)
Query: 6 DEEIFLVNPHGLLYNEITASSLVKVDMRGDII 37
+ +F++ P G+ Y+ +TA +V V + +
Sbjct: 35 ERGVFVIKPSGVDYSIMTADDMVVVSIETGEV 66
>1pvt_A Sugar-phosphate aldolase; structural genomics, PSI, protein
initiative, midwest center for structural genomics,
MCSG; 2.50A {Thermotoga maritima} SCOP: c.74.1.1
Length = 238
Score = 30.9 bits (70), Expect = 0.37
Identities = 5/44 (11%), Positives = 10/44 (22%)
Query: 1 ARLNVDEEIFLVNPHGLLYNEITASSLVKVDMRGDIIEPVLGLW 44
+ E L+ G E+ + + L
Sbjct: 51 FDYDGPEMYLLITATGSRMREVYEDDSKICLLHVLPGKHYEILH 94
>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 = 28.0 bits (61), Expect = 2.4
Identities = 9/23 (39%), Positives = 11/23 (47%), Gaps = 4/23 (17%)
Query: 118 KEFKKLQQQIKENRRADKITSGP 140
+ KKLQ +K AD S P
Sbjct: 20 QALKKLQASLK--LYADD--SAP 38
Score = 26.8 bits (58), Expect = 6.0
Identities = 8/35 (22%), Positives = 18/35 (51%), Gaps = 9/35 (25%)
Query: 234 QEIEEYKSTVSRKQRGEFSY-DDSESEALSSSAAL 267
Q +++ ++++ Y DDS + AL+ A +
Sbjct: 20 QALKKLQASLKL-------YADDS-APALAIKATM 46
>2pgn_A Cyclohexane-1,2-dione hydrolase (CDH); three alpha/beta domains;
HET: P6G FAD TPP; 1.20A {Azoarcus SP} PDB: 2pgo_A*
Length = 589
Score = 28.3 bits (64), Expect = 3.6
Identities = 17/93 (18%), Positives = 28/93 (30%), Gaps = 23/93 (24%)
Query: 101 PVKIDSALQFVPKNTNPKEFKKLQQQIKENRRADKITSGPQSQLLEGVSW-EEAKKLQDA 159
P +D +P + + + RA + P + E + AK
Sbjct: 157 PAYVD-----IPFDLTADQIDDKALVPRGATRAKSVLHAPNEDVREAAAQLVAAKN---- 207
Query: 160 NQSATGDQVILVGA------ASKELKSLAKKLQ 186
VIL G S+ L LA+ +
Sbjct: 208 -------PVILAGGGVARSGGSEALLKLAEMVG 233
>2a6h_C DNA-directed RNA polymerase beta chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.1
PDB: 1smy_C* 1zyr_C* 1iw7_C* 2a69_C* 2a6e_C 2a68_C*
2be5_C* 2cw0_C 2o5i_C 2o5j_C* 2ppb_C* 3aoh_C* 3aoi_C*
3dxj_C* 3eql_C* 1ynj_C* 1ynn_C* 2gho_C 1hqm_C 1l9u_C ...
Length = 1119
Score = 28.0 bits (63), Expect = 4.2
Identities = 14/69 (20%), Positives = 24/69 (34%), Gaps = 5/69 (7%)
Query: 223 YAKNPFDQMTDQEIEE-----YKSTVSRKQRGEFSYDDSESEALSSSAALPPRAGTKPPV 277
Y FD + EI+E ++ +++ F D E E L + L K P
Sbjct: 901 YISPIFDGAKEPEIKELLAQAFEVYFGKRKGEGFGVDKREVEVLRRAEKLGLVTPGKTPE 960
Query: 278 SETDDESRD 286
+ +
Sbjct: 961 EQLKELFLQ 969
>3bwn_A AT1G70560, L-tryptophan aminotransferase; auxin synthesis,
pyridoxal-5'- phosphate, indole-3-pyruvate; HET: LLP PMP
PHE; 2.25A {Arabidopsis thaliana} PDB: 3bwo_A*
Length = 391
Score = 27.2 bits (60), Expect = 7.8
Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 162 SATGDQVILVGAASKELK-SLAKKLQDANQSATGDQVILVGAASKGIIQ 209
S D L EL+ ++ +AT D+ I+VG S + Q
Sbjct: 57 SYFSDMTNLCWFLEPELEDAIKDLHGVVGNAATEDRYIVVGTGSTQLCQ 105
>3hno_A Pyrophosphate-dependent phosphofructokinase; structural genomics,
PSI-2, protein structure initiative; 2.00A {Nitrosospira
multiformis atcc 25196} PDB: 3k2q_A
Length = 419
Score = 27.0 bits (60), Expect = 8.3
Identities = 15/77 (19%), Positives = 26/77 (33%), Gaps = 17/77 (22%)
Query: 146 EGVSWEEAKKLQDANQSATGDQVILVGAASKELKSLAKKLQDANQSATGDQV---ILVGA 202
EGV ++ K L D L G A +A +++ G + +
Sbjct: 247 EGVKGDDGKFLSDQGVRDAFGHAQLGGVAPV----VASMVKEG----LGLKYHWGVA--- 295
Query: 203 ASKGIIQRGFQHNATVY 219
+QR +H A+
Sbjct: 296 ---DYLQRAARHIASKT 309
>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET:
SAH; 3.10A {Arabidopsis thaliana}
Length = 950
Score = 27.1 bits (59), Expect = 8.6
Identities = 34/205 (16%), Positives = 67/205 (32%), Gaps = 12/205 (5%)
Query: 98 SSTPVKIDSALQFVPKNTNPKEFKKLQQQIKENRRAD-----------KITSGPQSQLLE 146
S+ PVK S + K + + + KI + Q +LE
Sbjct: 417 STAPVKSLSDIFRSHKKLKVSGVDDANENLSRQKEDTPGLGHGFRCEVKIFTKSQDLVLE 476
Query: 147 GVSWEEAKKLQDANQSATGDQVILVGAASKELKSLAKKLQDANQSATGDQVILVGAASKG 206
+ +K DA Q+A+ ++ +L ++ D + A+
Sbjct: 477 CSPRKFYEKENDAIQNASLKALLWFSKFFADLDVDGEQSCDTDDDQDTKSSSPNVFAAPP 536
Query: 207 IIQRGFQHNATVYKTPYAKNPFDQMTDQEIEEYKSTVSRKQRGEFSYD-DSESEALSSSA 265
I+Q+ + A+ +T+ + ++S E+S D +S E S+
Sbjct: 537 ILQKEHSSESKNTNVLSAEKRVQSITNGSVVSICYSLSLAVDPEYSSDGESPREDNESNE 596
Query: 266 ALPPRAGTKPPVSETDDESRDEADL 290
+ S ES +E +
Sbjct: 597 EMESEYSANCESSVEPIESNEEIEF 621
>1ozh_A ALS, acetolactate synthase, catabolic; acetohydroxyacid synthase,
thiamin diphosphate, lyase; HET: PGE HE3; 2.00A
{Klebsiella pneumoniae} SCOP: c.31.1.3 c.36.1.5 c.36.1.9
PDB: 1ozg_A* 1ozf_A*
Length = 566
Score = 27.1 bits (61), Expect = 8.6
Identities = 14/95 (14%), Positives = 28/95 (29%), Gaps = 30/95 (31%)
Query: 101 PVKIDSALQFVPKN--TNPKEFKKLQQQIKENRRADKITSGPQSQLLEGVSW-EEAKKLQ 157
+ +P++ P K L A ++ + P + + +AK
Sbjct: 162 SAFVS-----LPQDVVDGPVSGKVLPA-----SGAPQMGAAPDDAIDQVAKLIAQAKN-- 209
Query: 158 DANQSATGDQVILVGA------ASKELKSLAKKLQ 186
+ L+G SK L+ L +
Sbjct: 210 ---------PIFLLGLMASQPENSKALRRLLETSH 235
>2noo_A NIKA, nickel-binding periplasmic protein; nickel-bound, transport,
iodine, hydrolase; HET: TYI; 1.65A {Escherichia coli
K12} PDB: 3mvx_A* 3dp8_A* 3e3k_A* 1zlq_A* 3mvw_A*
3mvy_A* 3mvz_A* 3mw0_A* 3mz9_A* 1uiu_A 1uiv_A 3mzb_A*
3qim_A
Length = 502
Score = 27.0 bits (60), Expect = 8.9
Identities = 12/91 (13%), Positives = 29/91 (31%), Gaps = 2/91 (2%)
Query: 205 KGIIQRGFQHNATVYKTPYAKNPFDQMTDQEIEEYKSTVSRKQRGEFSYDDSESEALSSS 264
K +I V T +A + + +Y ++ + + + +
Sbjct: 276 KSLIDNALYGTQQVADTLFAPSVPXANLGLKPSQYDPQKAKALLEKAGWTLPAGKDIREK 335
Query: 265 AALPPRAGTKPPVSETDDESRDEADLMQDSL 295
P + TD S+ A+++Q +
Sbjct: 336 NGQP--LRIELSFIGTDALSKSMAEIIQADM 364
>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin,
armadillo repeat, nuclear receptor LIGA binding domain,
protein binding; HET: P6L; 2.76A {Homo sapiens}
Length = 352
Score = 26.9 bits (59), Expect = 9.5
Identities = 18/84 (21%), Positives = 27/84 (32%), Gaps = 11/84 (13%)
Query: 95 PTHSSTPVKIDSALQFVPKNTNPKEFKKLQQQIKENRRADKITSGPQSQLLEGVSWEEAK 154
P KI + LQ N + E + + AD+ L V W A+
Sbjct: 124 PDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCK--MADQ-------TLFSIVEW--AR 172
Query: 155 KLQDANQSATGDQVILVGAASKEL 178
+ DQ+ L+ EL
Sbjct: 173 SSIFFRELKVDDQMKLLQNCWSEL 196
>2hox_A ALLIIN lyase 1; cysteine sulphoxide lyase, ALLIINASE; HET: NAG FUC
BMA P1T; 1.40A {Allium sativum} SCOP: c.67.1.1 PDB:
2hor_A* 1lk9_A*
Length = 427
Score = 26.8 bits (59), Expect = 9.5
Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 4/51 (7%)
Query: 153 AKKLQDANQSATGDQVILVGAASKELKSLAKKLQDANQSAT----GDQVIL 199
+ + +A D+ I+ G +L N +AT +V+
Sbjct: 110 KELHEVVGNAAAKDRYIVFGVGVTQLIHGLVISLSPNMTATPDAPESKVVA 160
>1vrg_A Propionyl-COA carboxylase, beta subunit; TM0716, structural joint
center for structural genomics, JCSG, protein structu
initiative, PSI; HET: MSE; 2.30A {Thermotoga maritima}
SCOP: c.14.1.4 c.14.1.4
Length = 527
Score = 26.8 bits (60), Expect = 10.0
Identities = 10/40 (25%), Positives = 17/40 (42%), Gaps = 4/40 (10%)
Query: 255 DSESEALSSSAA----LPPRAGTKPPVSETDDESRDEADL 290
D++ +A+S LP +PPV + D D+
Sbjct: 243 DNDEKAMSLVRTLLSYLPSNNAEEPPVEDPDTSLETPEDI 282
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
0.309 0.126 0.355
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,271,596
Number of extensions: 243289
Number of successful extensions: 617
Number of sequences better than 10.0: 1
Number of HSP's gapped: 615
Number of HSP's successfully gapped: 37
Length of query: 296
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 203
Effective length of database: 4,105,140
Effective search space: 833343420
Effective search space used: 833343420
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 57 (25.6 bits)