RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8934
(129 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 = 33.5 bits (76), Expect = 0.015
Identities = 25/145 (17%), Positives = 51/145 (35%), Gaps = 39/145 (26%)
Query: 4 AEDVESVPLAQSLLNAICDLLF-----C----PDFTVASN----KKFNSRKKMDYILNCT 50
+ ES S+ AI +LF C P+ ++ + N+ +L+ +
Sbjct: 286 TDSWES--FFVSVRKAI-TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 51 -LSFGGL-KLGTQDNLFINYLSRIH------RDEDFQFVLAGFSR-L--LNNPLL----- 94
L+ + + N + ++ V++G + L LN L
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK---NLVVSGPPQSLYGLNLTLRKAKAP 399
Query: 95 ----QTYLPNSTKKIEFHQELLVLF 115
Q+ +P S +K++F L +
Sbjct: 400 SGLDQSRIPFSERKLKFSNRFLPVA 424
Score = 31.2 bits (70), Expect = 0.080
Identities = 19/135 (14%), Positives = 43/135 (31%), Gaps = 40/135 (29%)
Query: 11 PLAQSLLNAICDLLFCPDFTVASNKKF--------------NSRKKMDYILNCTLSFGGL 56
L L+ + L T +K ++ DY+L+ +S +
Sbjct: 182 VLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLI 241
Query: 57 KLGTQDNLFINYL--SRIH--RDEDFQFVLAGFSRLLNNPLL-----------QTYLPNS 101
+ Q +Y+ +++ + + L G + L+ +++ +
Sbjct: 242 GV-IQ---LAHYVVTAKLLGFTPGELRSYLKGATGHSQG-LVTAVAIAETDSWESFFVSV 296
Query: 102 TKKIEFHQELLVLFW 116
K I VLF+
Sbjct: 297 RKAIT------VLFF 305
Score = 27.3 bits (60), Expect = 1.8
Identities = 14/69 (20%), Positives = 24/69 (34%), Gaps = 24/69 (34%)
Query: 57 KLGTQDNLFI---NYLSRIHRDEDFQFVLAG-------FSRLLNNPLLQTYLPNSTKKIE 106
++G + + NY E+ Q+V AG + +LN +KI+
Sbjct: 1832 RVGKRTGWLVEIVNYNV-----ENQQYVAAGDLRALDTVTNVLNF--------IKLQKID 1878
Query: 107 FHQELLVLF 115
EL
Sbjct: 1879 I-IELQKSL 1886
>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 = 32.1 bits (72), Expect = 0.041
Identities = 20/138 (14%), Positives = 41/138 (29%), Gaps = 24/138 (17%)
Query: 5 EDVESVP---LAQSLLN--------AICDLLFCPDFTVASNKKFNSRKKM--DYILNCTL 51
DV V SL+ +I + + V ++ + + Y + T
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYL--ELKVKLENEYALHRSIVDHYNIPKTF 459
Query: 52 SFGGLKLGTQDNLFINY----LSRIHRDEDFQFVLAGFSRL-LNNPLLQTYLPNSTKKIE 106
L D F ++ L I E F + L+ L+ + + +
Sbjct: 460 DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL----FRMVFLDFRFLEQKIRHDSTAWN 515
Query: 107 FHQELLVLFWKMCDYNKH 124
+L ++ Y +
Sbjct: 516 ASGSILNTLQQLKFYKPY 533
Score = 29.8 bits (66), Expect = 0.23
Identities = 12/81 (14%), Positives = 26/81 (32%), Gaps = 11/81 (13%)
Query: 43 MDYILNCTLSFGGLKLGTQDNLFINYLSRIHRDEDFQFVLAGFSRLLNNPLLQTYLPNST 102
MD+ G + +D L + + + D + V +L+ + + +
Sbjct: 7 MDF------ETGEHQYQYKDILSV-FEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD 59
Query: 103 KKIEFHQELLVLFWKMCDYNK 123
L LFW + +
Sbjct: 60 AV----SGTLRLFWTLLSKQE 76
Score = 27.1 bits (59), Expect = 1.8
Identities = 23/132 (17%), Positives = 39/132 (29%), Gaps = 30/132 (22%)
Query: 3 PAEDVESVPLAQSLLNAICDLLFCPDFTVASNKKFNSRKKMDYILNCTLSFGGLKLGTQD 62
P E + + P S++ S + + D + KL T
Sbjct: 319 PREVLTTNPRRLSII-------------AESIRDGLAT--WDNWKHVNCD----KLTTII 359
Query: 63 NLFINYLSRIHRDEDFQ--FV-LAGFSRLLNNP--LLQTYLPNSTKKIEFHQELLVLFWK 117
+N L +++ F L+ F + P LL + K ++ K
Sbjct: 360 ESSLNVLE----PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV--MVVVNKLHK 413
Query: 118 MCDYNKHNKESR 129
K KES
Sbjct: 414 YSLVEKQPKEST 425
>2pbi_A Regulator of G-protein signaling 9; helix WRAP, RGS domain, DEP
domain, DHEX domain, GGL domain, propeller, signaling
protein; 1.95A {Mus musculus}
Length = 424
Score = 26.3 bits (57), Expect = 3.1
Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 1/45 (2%)
Query: 85 FSRLLNNPLLQTYLPNSTKKIEFHQELLVLFWKMCDYNKHNKESR 129
FS L+ +P + KK EF E L + D ++
Sbjct: 302 FSELIRDPKGRQSFQYFLKK-EFSGENLGFWEACEDLKYGDQSKV 345
>1hn0_A Chondroitin ABC lyase I; chondroitinase ABC I, chonroitin
digestion, mechanism; 1.90A {Proteus vulgaris} SCOP:
a.102.3.2 b.18.1.17 b.24.1.1 b.30.5.2
Length = 1021
Score = 26.0 bits (56), Expect = 4.3
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 1/32 (3%)
Query: 61 QDNLFINYLSR-IHRDEDFQFVLAGFSRLLNN 91
Q N + IHR +D L ++ + +
Sbjct: 620 QGFYAFNGGAFGIHRWQDKMVTLKAYNTNVWS 651
>1ho8_A Vacuolar ATP synthase subunit H; heat repeat, hydrolase; 2.95A
{Saccharomyces cerevisiae} SCOP: a.118.1.9
Length = 480
Score = 25.9 bits (56), Expect = 5.3
Identities = 7/51 (13%), Positives = 19/51 (37%), Gaps = 1/51 (1%)
Query: 64 LFINYLSRIHRDEDFQFVLAGFSRLLN-NPLLQTYLPNSTKKIEFHQELLV 113
I+ LS ++ + V + LL+ + + + + ++L
Sbjct: 81 PLIHLLSTSDNEDCKKSVQNLIAELLSSDKYGDDTVKFFQEDPKQLEQLFD 131
>3da8_A Probable 5'-phosphoribosylglycinamide formyltransferase PURN;
glycinamide ribonucleotide transformylase, structure;
1.30A {Mycobacterium tuberculosis} PDB: 3dcj_A*
Length = 215
Score = 25.2 bits (56), Expect = 7.5
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 81 VLAGFSRLLNNPLLQTY 97
V AGF R+L L +
Sbjct: 94 VSAGFMRILGPQFLSRF 110
>3auf_A Glycinamide ribonucleotide transformylase 1; structural genomics,
riken structural genomics/proteomics in RSGI, rossmann
fold; 2.07A {Symbiobacterium toebii}
Length = 229
Score = 25.2 bits (56), Expect = 7.7
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 81 VLAGFSRLLNNPLLQTY 97
LAG+ RL+ P+L +
Sbjct: 106 CLAGYMRLVRGPMLTAF 122
>3av3_A Phosphoribosylglycinamide formyltransferase; structural genomics,
riken structural genomics/proteomics in RSGI, rossmann
fold; HET: MSE; 1.70A {Geobacillus kaustophilus}
Length = 212
Score = 25.2 bits (56), Expect = 7.8
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 81 VLAGFSRLLNNPLLQTY 97
LAG+ RL+ LL Y
Sbjct: 87 ALAGYMRLIGPTLLSAY 103
>2q1f_A Chondroitinase; alpha plus beta, lyase; 2.85A {Bacteroides
thetaiotaomicron}
Length = 1022
Score = 25.2 bits (54), Expect = 9.4
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 63 NLFINYLSR-IHRDEDFQFVLAGFSRLLNN 91
NL + Y + R E++ V G SR L
Sbjct: 597 NLSLGYGCVSVQRRENWSAVARGHSRYLWA 626
>3p9x_A Phosphoribosylglycinamide formyltransferase; structural genomics,
PSI-biology, protein STRU initiative; 1.90A {Bacillus
halodurans}
Length = 211
Score = 24.8 bits (55), Expect = 9.7
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 81 VLAGFSRLLNNPLLQTY 97
VLAG+ RL+ LL Y
Sbjct: 86 VLAGYMRLVGPTLLGAY 102
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
0.323 0.138 0.417
Gapped
Lambda K H
0.267 0.0777 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,848,445
Number of extensions: 93569
Number of successful extensions: 198
Number of sequences better than 10.0: 1
Number of HSP's gapped: 195
Number of HSP's successfully gapped: 22
Length of query: 129
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 46
Effective length of database: 4,384,350
Effective search space: 201680100
Effective search space used: 201680100
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (23.7 bits)