RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6812
(207 letters)
>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 = 36.2 bits (83), Expect = 0.006
Identities = 40/249 (16%), Positives = 68/249 (27%), Gaps = 100/249 (40%)
Query: 35 LLTC--SL-IITATQ---YVGSPIQCIVNGLPAHPINTYCWIMSTFTMPDAFQRQVGVEV 88
LL+ S +I Q YV + + G P ++ V +
Sbjct: 231 LLSIPISCPLIGVIQLAHYV---VTAKLLGF--TPGELRSYLKGATGHSQGLV--TAVAI 283
Query: 89 AHPGVANDFGDEDAKKYYSYYQWVCFVLFFQGIMCY--------TPKWIWDNFEGG---- 136
A F +K + LFF G+ CY P + D+ E
Sbjct: 284 AETDSWESF-FVSVRKAITV-------LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP 335
Query: 137 -LMKTL-VMGL-RIGICAEEEKCNKK----KAI----------------------IDYLL 167
M L + L + + K N K + ++ L
Sbjct: 336 SPM--LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 168 KHIK--------------RTLKFGFQYREVAA--H---------------KRKDIEWESG 196
+ K R LKF ++ VA+ H + ++ + +
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAK 453
Query: 197 TQPLFDLQI 205
D+QI
Sbjct: 454 -----DIQI 457
Score = 26.9 bits (59), Expect = 6.4
Identities = 22/114 (19%), Positives = 35/114 (30%), Gaps = 30/114 (26%)
Query: 46 QYVG--------SPI-QCIVNGLPAHPINTYCWIMSTFTMPDAFQRQVGVEVAHPGVAND 96
Q G S Q + N H +TY F++ D H
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRADNHFKDTY-----GFSILDIVINNPVNLTIH------ 1675
Query: 97 FGDEDAKKYYSYYQWVCFVLF----------FQGIMCYTPKWIWDNFEGGLMKT 140
FG E K+ Y + F F+ I ++ + + + +G L T
Sbjct: 1676 FGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT 1729
>2yk0_A Erythrocyte membrane protein 1; adhesin, pfemp1; 2.80A {Plasmodium
falciparum}
Length = 790
Score = 31.0 bits (70), Expect = 0.29
Identities = 15/77 (19%), Positives = 22/77 (28%), Gaps = 7/77 (9%)
Query: 97 FGDEDAKKYYSYYQWVCFVL--FFQGIMCYTPKWIWDNFEGGLMKTLVMGLRIGICAEEE 154
F + + Y V + DNF K + +
Sbjct: 636 FNKQFHGEGYDIAFKVKSYFEDNEADVRKS-----IDNFHVLKNKEEYEICNVDDNCRSQ 690
Query: 155 KCNKKKAIIDYLLKHIK 171
KKK I+ LLK +K
Sbjct: 691 NNKKKKDIVTILLKELK 707
>4ed9_A CAIB/BAIF family protein; ssgcid, NIH, niaid, SBRI, UW, emerald
biostructures, structu genomics; HET: NHE; 1.95A
{Brucella suis}
Length = 385
Score = 29.0 bits (66), Expect = 0.90
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 58 GLPAHPINTYCWIMSTFTMPDAFQRQVGVEVAH-PGVAN 95
G+PA PINT + F P R + ++ PG+
Sbjct: 318 GVPAGPINT---VADVFADPQFKARGMKIDPQGVPGLRT 353
>2qcu_A Aerobic glycerol-3-phosphate dehydrogenase; glycerol-3-phoshate
dehydrogenase, oxidoreductase; HET: BOG FAD TAM; 1.75A
{Escherichia coli} PDB: 2r45_A* 2r46_A* 2r4e_A* 2r4j_A*
Length = 501
Score = 28.7 bits (65), Expect = 1.2
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 9/41 (21%)
Query: 163 IDYLLKHIKRTLKFGFQYREVAAHKRKDIEWE-SGTQPLFD 202
I+YLL K +++ R DI W SG +PL D
Sbjct: 289 INYLLNVYNTHFK-----KQL---SRDDIVWTYSGVRPLCD 321
>1ehy_A Protein (soluble epoxide hydrolase); alpha/beta hydrolase fold,
epoxide degradation, epichlorohydrin; 2.10A
{Agrobacterium tumefaciens} SCOP: c.69.1.11
Length = 294
Score = 27.2 bits (61), Expect = 3.7
Identities = 6/43 (13%), Positives = 11/43 (25%), Gaps = 6/43 (13%)
Query: 77 PDAFQRQVGVEVAHPGVANDFGDEDAKKYYSYYQWVCFVLFFQ 119
D + + P + + S+Y F Q
Sbjct: 121 SDRVIKAAIFDPIQPDFGPVYFG-LGHVHESWY-----SQFHQ 157
>3da1_A Glycerol-3-phosphate dehydrogenase; NESG BHR167 Q9KDW6 X-RAY,
structural genomics, PSI-2, protein structure
initiative; HET: FAD; 2.70A {Bacillus halodurans}
Length = 561
Score = 26.9 bits (60), Expect = 5.7
Identities = 8/41 (19%), Positives = 13/41 (31%), Gaps = 8/41 (19%)
Query: 163 IDYLLKHIKRTLKFGFQYREVAAHKRKDIEWE-SGTQPLFD 202
DY+L + D+E +G +PL
Sbjct: 311 RDYILAAANYMFP----SLRL---TADDVESSWAGLRPLIH 344
>3qyj_A ALR0039 protein; alpha/beta fold, hydrolase; 1.78A {Nostoc SP}
Length = 291
Score = 26.4 bits (59), Expect = 6.0
Identities = 7/44 (15%), Positives = 16/44 (36%), Gaps = 7/44 (15%)
Query: 77 PDAFQRQVGVEVAHPGVANDFGDED-AKKYYSYYQWVCFVLFFQ 119
P ++ +++A D++ A YY ++ Q
Sbjct: 118 PHRVKKLALLDIAPTHKMYRTTDQEFATAYYHWF------FLIQ 155
>3odu_A C-X-C chemokine receptor type 4, lysozyme chimera; structural
genomics, PSI-2, protein structure initiative; HET: ITD
OLC OLA; 2.50A {Homo sapiens} PDB: 3oe8_A* 3oe6_A*
3oe0_A* 3oe9_A* 2k03_B* 2k04_B 2k05_B*
Length = 502
Score = 26.8 bits (59), Expect = 6.9
Identities = 15/113 (13%), Positives = 35/113 (30%), Gaps = 26/113 (23%)
Query: 28 NLFTTALLLTCSLIITATQYVGSPIQCIVNGLPAHPINTYC---------WIMSTF-TMP 77
NL+++ +L I+ +Y+ IV+ + WI + T+P
Sbjct: 129 NLYSSVWILAF---ISLDRYL-----AIVHATNSQRPRKLLAEKVVYVGVWIPALLLTIP 180
Query: 78 DAFQRQVGVEVAHPGVANDFGDEDAKKYYSYYQWVCFVLFFQ---GIM--CYT 125
D V + ++ + + ++ ++ CY
Sbjct: 181 DFIFANVSEADDRYICDRFYPNDLWVVVFQFQH---IMVGLILPGIVILSCYC 230
>3kkz_A Uncharacterized protein Q5LES9; putative methyltransferase, BFR250,
NESG, structural genomics, PSI-2; HET: SAM; 1.68A
{Bacteroides fragilis nctc 9343} PDB: 3e7p_A 3t7s_A*
3t7r_A* 3t7t_A*
Length = 267
Score = 26.0 bits (57), Expect = 8.6
Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 6/61 (9%)
Query: 62 HPINTYCWIMSTFTMPDAFQRQVGVEVAHPGVANDFGDEDA------KKYYSYYQWVCFV 115
+ CW FT A Q+ + A +A +F + KY YY + F+
Sbjct: 194 FILPENCWTDHYFTPKVAAQKIFLTKYAGNKIAEEFSMLQSIEEELYHKYKEYYGYTFFI 253
Query: 116 L 116
Sbjct: 254 A 254
>3if2_A Aminotransferase; YP_265399.1, structura genomics, joint center for
structural genomics, JCSG, prote structure initiative,
PSI-2; HET: PLP; 2.50A {Psychrobacter arcticus 273-4}
Length = 444
Score = 26.2 bits (58), Expect = 8.6
Identities = 8/34 (23%), Positives = 16/34 (47%), Gaps = 4/34 (11%)
Query: 135 GGLMKTLVMGLRIG-ICAEEE---KCNKKKAIID 164
L K + G+R G I A+ + + A+++
Sbjct: 272 FSLSKIGLPGMRTGIIVADAKVIEAVSAMNAVVN 305
>3mc6_A Sphingosine-1-phosphate lyase; carboxy-lyase activity, pyridoxyl
phosphate; HET: LLP; 3.15A {Saccharomyces cerevisiae}
Length = 497
Score = 26.4 bits (58), Expect = 8.9
Identities = 4/29 (13%), Positives = 8/29 (27%), Gaps = 2/29 (6%)
Query: 69 WIMSTFTMPDAFQRQVGVEVAHPGVANDF 97
W + P A + V ++
Sbjct: 400 WHFNALQKPVA--LHMAFTRLSAHVVDEI 426
>3cgv_A Geranylgeranyl reductase related protein; NP_393992.1,
geranylgeranyl bacteriochlorophyll reductase- like FIXC
homolog; HET: MSE FAD UNL; 1.60A {Thermoplasma
acidophilum dsm 1728} PDB: 3oz2_A*
Length = 397
Score = 26.1 bits (58), Expect = 9.0
Identities = 6/42 (14%), Positives = 16/42 (38%), Gaps = 1/42 (2%)
Query: 146 RIGICAEEEKCNKKKAIIDYLLKHIKRTLKF-GFQYREVAAH 186
+GI + + + + +YL + I+ Q ++
Sbjct: 222 NVGIGSSINWIHNRFELKNYLDRFIENHPGLKKGQDIQLVTG 263
>3mad_A Sphingosine-1-phosphate lyase; carboxy-lyase activity, pyridoxal
phosphate; HET: LLP; 2.00A {Symbiobacterium
thermophilum} PDB: 3maf_A* 3mau_A* 3mbb_A*
Length = 514
Score = 26.0 bits (57), Expect = 9.5
Identities = 8/29 (27%), Positives = 13/29 (44%)
Query: 69 WIMSTFTMPDAFQRQVGVEVAHPGVANDF 97
W ++ P AF + + PGV + F
Sbjct: 430 WRLNGLHRPPAFHVALTLRHTEPGVVDRF 458
>3r40_A Fluoroacetate dehalogenase; FACD, defluorinase, alpha/beta
hydrolase, hydrolase; 1.05A {Rhodopseudomonas palustris}
PDB: 3r3w_A 3r3x_A 3r3v_A 3r3u_A 3r3z_A 3r41_A 3r3y_A
Length = 306
Score = 26.1 bits (58), Expect = 9.9
Identities = 5/44 (11%), Positives = 10/44 (22%), Gaps = 7/44 (15%)
Query: 77 PDAFQRQVGVEVAHPGV-ANDFGDEDAKKYYSYYQWVCFVLFFQ 119
P + +++ A K Y + Q
Sbjct: 126 PGRLSKLAVLDILPTYEYWQRMNRAYALKIYHWS------FLAQ 163
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
0.326 0.141 0.460
Gapped
Lambda K H
0.267 0.0814 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,315,872
Number of extensions: 190631
Number of successful extensions: 452
Number of sequences better than 10.0: 1
Number of HSP's gapped: 452
Number of HSP's successfully gapped: 18
Length of query: 207
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,216,824
Effective search space: 497585232
Effective search space used: 497585232
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (24.8 bits)