RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10773
(290 letters)
>2zws_A Neutral ceramidase; prism fold and beta-sandwich fold, hydrolase,
lipid metaboli secreted; HET: PLM; 1.40A {Pseudomonas
aeruginosa} PDB: 2zxc_A*
Length = 646
Score = 128 bits (322), Expect = 1e-33
Identities = 69/220 (31%), Positives = 95/220 (43%), Gaps = 43/220 (19%)
Query: 47 AESISRAHNNLQKGRLFVSKGELLDANINRSPTAYLQNPEEERMRYEHDVDKGMVQLQFI 106
SI RA LQ GRLF GEL +A+ NRS ++L+NP+ YE +D M L F+
Sbjct: 131 VRSIERAQARLQPGRLFYGSGELRNASRNRSLLSHLKNPD--IAGYEDGIDPQMSVLSFV 188
Query: 107 SAEDRPLGVINWFAVHPTSMNNTNRLVSSDN---------------GKFVAAFASTNLGD 151
A G I+WF VH TSM N N L+S DN FVAAFA TN G+
Sbjct: 189 DANGELAGAISWFPVHSTSMTNANHLISPDNKGYASYHWEHDVSRKSGFVAAFAQTNAGN 248
Query: 152 VSPNIKGPKCLLTGVDCDIDTSACPKQGDSCVASGPGRDMFESTRLIAERMYRKA--LMN 209
+SPN+ SGP + F++TR I R + KA +
Sbjct: 249 LSPNLNL-----------------------KPGSGPFDNEFDNTREIGLRQFAKAYEIAG 285
Query: 210 VPHQWQPNTVSTQLVRIGHLVLVGVPGELTTMAGRRLRRA 249
+ + ++ + + + E T R+L A
Sbjct: 286 QAQEEVLGELDSRFRFV-DFTRLPIRPEFTDGQPRQLCTA 324
Score = 84.5 bits (208), Expect = 1e-18
Identities = 34/73 (46%), Positives = 41/73 (56%)
Query: 211 PHQWQPNTVSTQLVRIGHLVLVGVPGELTTMAGRRLRRALQDELGLLMESDVIIAGLANT 270
P+ W P + Q+ RIG L L+G P E T MAG R+RRA+Q V+ G AN
Sbjct: 385 PYPWTPTVLPIQMFRIGQLELLGAPAEFTVMAGVRIRRAVQAASEAAGIRHVVFNGYANA 444
Query: 271 YADYVTTPEEYQE 283
YA YVTT EEY
Sbjct: 445 YASYVTTREEYAA 457
>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 = 42.1 bits (98), Expect = 2e-04
Identities = 55/354 (15%), Positives = 101/354 (28%), Gaps = 109/354 (30%)
Query: 15 LRLFSRAFIID-------DGERRFVFVSVDSGMIGYNIRAESISRAHNNLQKGRLF---V 64
L +F AF+ + D + + + I I RLF +
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPKS-ILSKEEIDHI--------IMSKDAVSGTLRLFWTLL 72
Query: 65 SKGE---------LLDANIN----------RSPTAYLQNPEEERMRYEHDVD---KGMV- 101
SK E +L N R P+ + E+R R +D K V
Sbjct: 73 SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132
Query: 102 ------QLQFISAEDRPLGVINWFAVHPTSMNNTNR--LVSS--DNGKFVAAFAST---- 147
+L+ E RP + + + + + + K
Sbjct: 133 RLQPYLKLRQALLELRP---AKNVLID--GVLGSGKTWVALDVCLSYKVQCKMDFKIFWL 187
Query: 148 NLGDV-SPN--IKGPKCLLTGVDCDIDTSACPKQGDSCVASGPGRDMFEST-----RLIA 199
NL + SP ++ + LL +D + + + D S + S RL+
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTS-----RSDH---SSNIKLRIHSIQAELRRLLK 239
Query: 200 ERMYRKALM---NVPHQWQPNTV------STQLV--------------RIGHLVLVGVPG 236
+ Y L+ NV L+ H+ L
Sbjct: 240 SKPYENCLLVLLNV---QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 237 ELTTMAGRRL-RRALQDELGLLMESDV-----IIAGLANTYADYVTTPEEYQEI 284
LT + L + L L + ++ +A + D + T + ++ +
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV 350
Score = 36.0 bits (82), Expect = 0.014
Identities = 41/282 (14%), Positives = 81/282 (28%), Gaps = 102/282 (36%)
Query: 39 GMIGYNIRAESISR----AHNNLQKGRLFVSKGELLDANINRSPTAYLQNPEEERMRYEH 94
+I +IR + ++ H N K ++++++N + P E R ++
Sbjct: 331 SIIAESIR-DGLATWDNWKHVNCDK------LTTIIESSLN------VLEPAEYRKMFDR 377
Query: 95 ------DVDKGMVQLQFISAEDRPLGVIN--WFAVHPTSMNNTNRLVSSDNGKFVAAFAS 146
I P +++ WF ++ SD V
Sbjct: 378 LSVFPPSAH--------I-----PTILLSLIWFD-----------VIKSDVMVVVNKLHK 413
Query: 147 TNLGDVSPNIKGPKCLLTGV-DCDIDTSACPKQGDSCVASGPGRDMFESTRLIAERMYRK 205
+L + K PK + ++ + + R I + Y
Sbjct: 414 YSLVE-----KQPKESTISIPSIYLELKV------------KLENEYALHRSIVDH-Y-- 453
Query: 206 ALMNVPHQWQPNTVSTQLVR------IG-HLVLVGVPGELTTMAGRRLRRALQDELGLLM 258
N+P + + + + IG HL + E T+ R D L
Sbjct: 454 ---NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE-HPERMTL----FRMVFLD-FRFL- 503
Query: 259 ESDVIIAGLA--------------NTYADYVTTPE-EYQEIV 285
E + A Y Y+ + +Y+ +V
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545
Score = 27.9 bits (61), Expect = 5.3
Identities = 9/81 (11%), Positives = 30/81 (37%), Gaps = 9/81 (11%)
Query: 177 KQGDSCVASGPGRDMFESTRL----IAER-----MYRKALMNVPHQWQPNTVSTQLVRIG 227
+ ASG + + + I + A+++ + + N + ++ +
Sbjct: 509 HDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL 568
Query: 228 HLVLVGVPGELTTMAGRRLRR 248
+ L+ + A ++++R
Sbjct: 569 RIALMAEDEAIFEEAHKQVQR 589
>3ia8_A THAP domain-containing protein 4; beta barrel,structural genomics,
protein structure initiativ center for eukaryotic
structural genomics, CESG; HET: HEM; 1.79A {Homo
sapiens}
Length = 163
Score = 31.8 bits (72), Expect = 0.15
Identities = 15/108 (13%), Positives = 39/108 (36%), Gaps = 16/108 (14%)
Query: 15 LRLFSRAFIIDDG-----ERRFVFVSVDSGMIGYNIRAESISRAHNN----LQKGRLFVS 65
L +F D E F+ + D+ + + A N +++G +
Sbjct: 50 LNFSFNSFHPDTRKPMHRECGFIRLKPDTNKVAFVS-------AQNTGVVEVEEGEVNGQ 102
Query: 66 KGELLDANINRSPTAYLQNPEEERMRYEHDVDKGMVQLQFISAEDRPL 113
+ + +I R A + E+ ++ + + + Q ++ +P+
Sbjct: 103 ELCIASHSIARISFAKEPHVEQITRKFRLNSEGKLEQTVSMATTTQPM 150
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 30.5 bits (69), Expect = 0.73
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 7/44 (15%)
Query: 227 GHLVLVGVPGELTTMAGRRLRRALQDELGL-------LMESDVI 263
+ L+G PG ++ RRL+ A Q+ +V
Sbjct: 42 ESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVF 85
>2xmz_A Hydrolase, alpha/beta hydrolase fold family; menaquinone
biosynthesis, lyase; 1.94A {Staphylococcus aureus}
Length = 269
Score = 27.7 bits (62), Expect = 4.2
Identities = 10/69 (14%), Positives = 22/69 (31%), Gaps = 6/69 (8%)
Query: 225 RIGHLVLVGVPGELTTMAGRRLRRALQDELGLLMESDVIIAGLANTYADYVT------TP 278
I +L+L + A + RR + D +++ I + + +
Sbjct: 107 PISNLILESTSPGIKEEANQLERRLVDDARAKVLDIAGIELFVNDWEKLPLFQSQLELPV 166
Query: 279 EEYQEIVHM 287
E +I
Sbjct: 167 EIQHQIRQQ 175
>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide
repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A
{Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3
b.26.1.2 PDB: 2fez_A*
Length = 388
Score = 27.4 bits (61), Expect = 6.9
Identities = 6/13 (46%), Positives = 10/13 (76%)
Query: 244 RRLRRALQDELGL 256
RR++ L D+LG+
Sbjct: 229 RRVKTTLADDLGI 241
>2qzs_A Glycogen synthase; glycosyl-transferase, GT-B fold, rossmann fold,
closed-form, ADP and glucose binding, glycogen
biosynthesis; HET: GLC ADP 250; 2.20A {Escherichia coli}
PDB: 2r4t_A* 2r4u_A* 3guh_A* 3cx4_A* 3cop_A* 3d1j_A
Length = 485
Score = 26.7 bits (60), Expect = 9.9
Identities = 7/30 (23%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 239 TTMAGRRL-RRALQDELGLLMESDVIIAGL 267
T+ + +R LQ +GL ++ V + +
Sbjct: 268 DTLEDKAENKRQLQIAMGLKVDDKVPLFAV 297
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
0.319 0.135 0.396
Gapped
Lambda K H
0.267 0.0669 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,516,860
Number of extensions: 275918
Number of successful extensions: 674
Number of sequences better than 10.0: 1
Number of HSP's gapped: 670
Number of HSP's successfully gapped: 13
Length of query: 290
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 197
Effective length of database: 4,105,140
Effective search space: 808712580
Effective search space used: 808712580
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 (21.8 bits)
S2: 57 (25.9 bits)