RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy606
(210 letters)
>1v5r_A Growth-arrest-specific protein 2; GAS2 domain, zinc binding domain,
apoptosis, cell cycle, structural genomics; NMR {Mus
musculus} SCOP: d.82.4.1
Length = 97
Score = 104 bits (260), Expect = 2e-29
Identities = 36/79 (45%), Positives = 54/79 (68%), Gaps = 5/79 (6%)
Query: 132 TNDLKSLDEMVRDLV--ARCTCPTQFPMIRVSEGKYRIGDTKVLIFVRVLRS-HVMVRVG 188
+ LD+ V+ + C CPT+F + R+S+G+YR+G+ ++F+R+L + HVMVRVG
Sbjct: 4 GSSGNLLDDAVKRISEDPPCKCPTKFCVERLSQGRYRVGEK--ILFIRMLHNKHVMVRVG 61
Query: 189 GGWDTLSHYLDKHDPCRCK 207
GGW+T + YL KHDPCR
Sbjct: 62 GGWETFAGYLLKHDPCRML 80
>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 = 41.2 bits (96), Expect = 2e-04
Identities = 41/208 (19%), Positives = 67/208 (32%), Gaps = 72/208 (34%)
Query: 2 PAPML-------IQLEREIDREIAADKKKLGFSDNEYYDAD--LEDDLSDSDDEAQY--- 49
P+PML Q++ +++ N + A +E L +
Sbjct: 335 PSPMLSISNLTQEQVQDYVNK------------TNSHLPAGKQVEISLVNGAK--NLVVS 380
Query: 50 GPLPQIVTNDLKSLDEMVARRGAKLGMPAPM-LIQLEREIDREIAADKKKLGFSDNEY-- 106
GP PQ L L+ + R AK AP L Q I ++KL FS N +
Sbjct: 381 GP-PQ----SLYGLNLTL--RKAK----APSGLDQ------SRIPFSERKLKFS-NRFLP 422
Query: 107 --------Y--DA--DLEDDLSDSDDEAQYGPL--PQIVTN---DLKSLDEMVRDLVARC 149
A + DL ++ + P T DL+ L + + + C
Sbjct: 423 VASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDC 482
Query: 150 TC--PTQFPMIRVSEGKYRIGDTKVLIF 175
P ++ + T +L F
Sbjct: 483 IIRLPVKWETTT------QFKATHILDF 504
Score = 38.1 bits (88), Expect = 0.001
Identities = 47/251 (18%), Positives = 71/251 (28%), Gaps = 107/251 (42%)
Query: 1 MPAPMLIQLEREIDREIAADKKKLGFSDNEYYD--------------------ADLEDDL 40
P +IQL + + A K LGF+ E D +
Sbjct: 238 CPLIGVIQLAHYV---VTA--KLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESF 292
Query: 41 SDSDDEA------------QYGP---LPQIVTNDLKSLDEMVARRGAKLGMPAPML---- 81
S +A + P LP + D +E G+P+PML
Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNE---------GVPSPMLSISN 343
Query: 82 ---IQLEREIDREIAADKKKLGFSDNEYYDAD--LEDDLSDSDDEAQY---GPLPQIVTN 133
Q++ +++ N + A +E L + GP PQ
Sbjct: 344 LTQEQVQDYVNK------------TNSHLPAGKQVEISLVNGAK--NLVVSGP-PQ---- 384
Query: 134 DLKSLDEMVRDLVARCTCP-TQFPMIRVSEGKYRIGDTKVLIFVRVLRS----HVMVRVG 188
L L+ +R A ++ P SE R K+ R L H
Sbjct: 385 SLYGLNLTLRKAKAPSGLDQSRIPF---SE---R----KLKFSNRFLPVASPFH------ 428
Query: 189 GGWDTLSHYLD 199
SH L
Sbjct: 429 ------SHLLV 433
Score = 32.7 bits (74), Expect = 0.088
Identities = 35/246 (14%), Positives = 63/246 (25%), Gaps = 130/246 (52%)
Query: 11 REI-DREIAADK---KKLGFS------DN-----------------EYYDADLEDDLSDS 43
+++ +R AD GFS +N E Y A + + + D
Sbjct: 1643 QDVWNR---ADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDG 1699
Query: 44 DDEAQ---------------YGP---L-------PQIVT------NDLK----------- 61
+ + L P + DLK
Sbjct: 1700 KLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATF 1759
Query: 62 ---SLDE------------------MVARRG--------------AKLGM----PAPMLI 82
SL E +V RG + GM P +
Sbjct: 1760 AGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAA 1819
Query: 83 QLEREIDREIAADKKKLGFSDNEYYDADLE---DDLSDSDDEAQYGPLPQIVTNDLKSLD 139
+E + + +++G +E ++ + QY + DL++LD
Sbjct: 1820 SFSQEALQYVV---ERVGKRTGWL----VEIVNYNVENQ----QY-----VAAGDLRALD 1863
Query: 140 EMVRDL 145
+ L
Sbjct: 1864 TVTNVL 1869
>3b1n_A Ribokinase, putative; rossmann fold, ATP binding, Mg binding,
nucleoside B transferase; HET: MZR ADP; 1.55A
{Burkholderia thailandensis} PDB: 3b1o_A 3b1p_A* 3b1q_A*
3b1r_A*
Length = 326
Score = 28.4 bits (64), Expect = 1.5
Identities = 15/89 (16%), Positives = 25/89 (28%), Gaps = 17/89 (19%)
Query: 55 IVTNDLKSLDEMV--ARRGAKLGM-----PAPMLIQLEREIDREIAADKKKLGFSD---- 103
+ MV A+ G+ P L + R + +
Sbjct: 138 LAIVGPDGFQGMVQHTEELAQAGVPFIFDPGQGLPLFDGATLRRS------IELATYIAV 191
Query: 104 NEYYDADLEDDLSDSDDEAQYGPLPQIVT 132
N+Y + D S+DE I+T
Sbjct: 192 NDYEAKLVCDKTGWSEDEIASRVQALIIT 220
>3ego_A Probable 2-dehydropantoate 2-reductase; structural genomics, PANE,
unknown function, cytoplasm, NADP, oxidoreductase; 1.90A
{Bacillus subtilis}
Length = 307
Score = 26.8 bits (60), Expect = 6.1
Identities = 5/32 (15%), Positives = 12/32 (37%), Gaps = 7/32 (21%)
Query: 67 VARRGAKLGMPAP-------MLIQLEREIDRE 91
+ + + G+ A + LER ++
Sbjct: 268 LLKEASLQGLDAVHLEFLYGSIKALERNTNKV 299
>1tqh_A Carboxylesterase precursor; tetrahedral intermediate, alpha/beta
hydrolase; 1.63A {Geobacillus stearothermophilus} SCOP:
c.69.1.29 PDB: 1r1d_A* 4diu_A
Length = 247
Score = 26.3 bits (58), Expect = 7.4
Identities = 10/49 (20%), Positives = 18/49 (36%)
Query: 105 EYYDADLEDDLSDSDDEAQYGPLPQIVTNDLKSLDEMVRDLVARCTCPT 153
EY + + + + ++ P L+ L VRD + PT
Sbjct: 137 EYKKREGKSEEQIEQEMEKFKQTPMKTLKALQELIADVRDHLDLIYAPT 185
>1jr3_D DNA polymerase III, delta subunit; processivity, processivity
clamp, clamp loader, AAA+ ATPase, transferase; HET:
DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20
PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A*
3gli_A*
Length = 343
Score = 26.4 bits (58), Expect = 9.0
Identities = 8/44 (18%), Positives = 14/44 (31%)
Query: 9 LEREIDREIAADKKKLGFSDNEYYDADLEDDLSDSDDEAQYGPL 52
L +E + GF ++ + D D + Q L
Sbjct: 30 LLQESQDAVRQVAAAQGFEEHHTFSIDPNTDWNAIFSLCQAMSL 73
Score = 26.4 bits (58), Expect = 9.0
Identities = 8/44 (18%), Positives = 14/44 (31%)
Query: 84 LEREIDREIAADKKKLGFSDNEYYDADLEDDLSDSDDEAQYGPL 127
L +E + GF ++ + D D + Q L
Sbjct: 30 LLQESQDAVRQVAAAQGFEEHHTFSIDPNTDWNAIFSLCQAMSL 73
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 0.138 0.404
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,431,266
Number of extensions: 213224
Number of successful extensions: 522
Number of sequences better than 10.0: 1
Number of HSP's gapped: 519
Number of HSP's successfully gapped: 19
Length of query: 210
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 121
Effective length of database: 4,216,824
Effective search space: 510235704
Effective search space used: 510235704
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: 55 (25.0 bits)