RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2824
(242 letters)
>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 = 47.5 bits (112), Expect = 2e-06
Identities = 40/253 (15%), Positives = 81/253 (32%), Gaps = 59/253 (23%)
Query: 8 HVLQEVARR---NEQFKPTTVNKLIEL-EI-DPGTLLAFD-----------KNDINLGEL 51
H +Q RR ++ ++ N L+ L + + AF+ K +
Sbjct: 228 HSIQAELRRLLKSKPYE----NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA 283
Query: 52 RQDKDKYLKD----LTRDNT-QLLINKIW----ELPTERRDEDIVATLPDPTYILPREKP 102
L LT D LL+ + +LP E ++ T P I+
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE-----VLTTNPRRLSIIAESIR 338
Query: 103 LPKITMTKWEEFALEKGIRKTKK---------VKKKWDD--ILKE--WVPTYGFKRRLAE 149
T W+ +K + +K +D + +PT +
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL-I-- 395
Query: 150 KKHQWMLPVPANADPMEDQFAKKSAAQKERVARNEYQ-RLRNIARSNKTKVPSVGVMPHE 208
W + ++ + ++ K S +K+ E + +I K K+ + + H
Sbjct: 396 ----WFDVIKSDVMVVVNKLHKYSLVEKQ---PKESTISIPSIYLELKVKLENEYAL-HR 447
Query: 209 SVLSSRQLREAAD 221
S++ + + D
Sbjct: 448 SIVDHYNIPKTFD 460
Score = 31.7 bits (71), Expect = 0.25
Identities = 33/205 (16%), Positives = 65/205 (31%), Gaps = 66/205 (32%)
Query: 45 DINLGELR---QD-----KDKYLKDL----TRDNTQLLINKIWELPTERRDEDIVATLPD 92
D GE + +D +D ++ + +D + +++K + D + D
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSK--------EEIDHIIMSKD 59
Query: 93 P---TYILPREKPLPKITMTKWEEFALEKGIRKTKKVKKKWDDILKEWVPTYGF-KRRLA 148
T L W L K + V+K +++L+ Y F +
Sbjct: 60 AVSGTLRL------------FW--TLLSKQ---EEMVQKFVEEVLR---INYKFLMSPIK 99
Query: 149 EKKHQWMLPVPANADPMEDQFAKKSAAQKERVARNE-YQRLRNIARSNKTKVPSVGVMPH 207
++ Q + + + + K V+R + Y +LR
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ----------------- 142
Query: 208 ESVLSSRQLREAADVAVVSTASIGK 232
L +LR A +V + GK
Sbjct: 143 --AL--LELRPAKNVLIDGVLGSGK 163
>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 = 34.3 bits (78), Expect = 0.042
Identities = 24/162 (14%), Positives = 46/162 (28%), Gaps = 45/162 (27%)
Query: 75 WELPT------ERRDEDIVATLPDPTYILPR-EKPLPKITMTKWEEF------ALEKGIR 121
+PT + E LP+PT ++P + +F +E
Sbjct: 20 LLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAEL--VGKFLGYVSSLVEPS-- 75
Query: 122 KTKKVKKKWDDILKEWVPTYGFKRR-LAEKK-HQWMLPVPANADPMEDQFAKKSAAQKER 179
++D +L + F+ L H + D + + +
Sbjct: 76 ----KVGQFDQVLNLCLTE--FENCYLEGNDIHALAAKLLQEND--------TTLVKTKE 121
Query: 180 VARNEYQRLRNIARSNKTKVPSVGVMPHESVLSSRQLREAAD 221
+ +N Y R +A+ K S L R +
Sbjct: 122 LIKN-YITARIMAKRPFDK-------KSNSAL----FRAVGE 151
Score = 31.2 bits (70), Expect = 0.32
Identities = 24/172 (13%), Positives = 52/172 (30%), Gaps = 67/172 (38%)
Query: 117 EKGI-----RKTKKVKKKWDDILKEWVPTYGFK---------------------RRLAEK 150
E+G+ + +K + W+ + TYGF +R+ E
Sbjct: 1628 EQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRE- 1686
Query: 151 KHQWMLPVPANADPMEDQFAKKSAAQKERVARNEYQRLRNIARS------NKTKV--PSV 202
N M + + E++ + + + + T+ P++
Sbjct: 1687 ----------NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL 1736
Query: 203 GVMPHESVLSSRQLREA----ADVAVVSTA--SIGKYQPS--------LPLE 240
+M + L+ AD A S+G+Y + + +E
Sbjct: 1737 TLM---EKAAFEDLKSKGLIPADATF---AGHSLGEY--AALASLADVMSIE 1780
>2rbk_A Putative uncharacterized protein; HAD-like phosphatase, unknown
function; 1.00A {Bacteroides thetaiotaomicron} SCOP:
c.108.1.10 PDB: 1ymq_A 2rb5_A 2rav_A 2rar_A
Length = 261
Score = 30.6 bits (70), Expect = 0.39
Identities = 9/74 (12%), Positives = 24/74 (32%), Gaps = 6/74 (8%)
Query: 54 DKDKYLKDLTRDNTQLLINKIWELPTERRDEDIVATLP--DPTYILPREKPLPKITMTKW 111
++ +K + D + + E +++++ P +P + +W
Sbjct: 116 QPNEMVKKIFYDFLHVNVIPTVS-FEEASNKEVIQMTPFITEEEEKEVLPSIPTCEIGRW 174
Query: 112 EEFALE---KGIRK 122
+ KG K
Sbjct: 175 YPAFADVTAKGDTK 188
>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer,
ATP-binding, helicase, hydrolase, nucleotide-binding;
2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A
Length = 212
Score = 29.2 bits (66), Expect = 0.85
Identities = 11/56 (19%), Positives = 19/56 (33%)
Query: 180 VARNEYQRLRNIARSNKTKVPSVGVMPHESVLSSRQLREAADVAVVSTASIGKYQP 235
E + + + R+ + V E VL ++ A +A V YQ
Sbjct: 135 YGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLYQD 190
>3ryc_B Tubulin beta chain; alpha-tubulin, beta-tubulin, GTPase,
microtubule, tubulin, cell cycle; HET: GTP GDP; 2.10A
{Ovis aries} PDB: 3ryf_B* 3ryh_B* 3ryi_B* 3hke_B*
3du7_B* 3e22_B* 3hkc_B* 3hkd_B* 3hkb_B* 3n2g_B* 3n2k_B*
1z2b_B* 2xrp_A* 1tvk_B* 1tub_B* 1jff_B* 1ia0_B* 1ffx_B*
1sa0_B* 1sa1_B* ...
Length = 445
Score = 29.3 bits (66), Expect = 1.2
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 198 KVPSVGVMPHESVLSSRQLREAADVAVV 225
KV V P+ + LS QL E D
Sbjct: 174 KVSDTVVEPYNATLSVHQLVENTDETYS 201
>2bto_A Tubulin btuba; bacterial tubulin, polymerization, cytoskeleton,
protein COM cytoskeletal protein; HET: GTP; 2.5A
{Prosthecobacter dejongeii} SCOP: c.32.1.1 d.79.2.1 PDB:
2btq_A*
Length = 473
Score = 29.0 bits (65), Expect = 1.7
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 198 KVPSVGVMPHESVLSSRQLREAADVAVV 225
+V SV P+ +V + LR +AD ++
Sbjct: 178 QVSSVVTEPYNTVFALNTLRRSADACLI 205
>3ryc_A Tubulin alpha chain; alpha-tubulin, beta-tubulin, GTPase,
microtubule, tubulin, cell cycle; HET: GTP GDP; 2.10A
{Ovis aries} PDB: 3ryf_A* 3ryh_A* 3ryi_A* 3hke_A*
3hkc_A* 3hkd_A* 3hkb_A* 3n2g_A* 3n2k_A* 1sa0_A* 1sa1_A*
3edl_F* 1ffx_A* 1ia0_A* 2hxf_A* 2hxh_A* 2p4n_A* 1jff_A*
2wbe_A* 3dco_A* ...
Length = 451
Score = 28.6 bits (64), Expect = 1.7
Identities = 8/28 (28%), Positives = 16/28 (57%)
Query: 198 KVPSVGVMPHESVLSSRQLREAADVAVV 225
+V + V P+ S+L++ E +D A +
Sbjct: 176 QVSTAVVEPYNSILTTHTTLEHSDCAFM 203
>2btq_B Tubulin btubb; structural protein, cytoskeletal protein/complex,
bacterial tubulin, cytoskeleton, polymerization,
verrucomicrobia; HET: GDP; 3.2A {Prosthecobacter
dejongeii}
Length = 426
Score = 28.5 bits (64), Expect = 1.8
Identities = 7/28 (25%), Positives = 17/28 (60%)
Query: 198 KVPSVGVMPHESVLSSRQLREAADVAVV 225
+ V P+ ++L+ +++ + AD AV+
Sbjct: 175 LISDSAVEPYNAILTLQRILDNADGAVL 202
>3cb2_A Gamma-1-tubulin, tubulin gamma-1 chain; lattice, microtubule,
nucleation, GTPase, lateral interaction, structural
protein, hydrolase; HET: GDP; 2.30A {Homo sapiens} PDB:
1z5v_A* 1z5w_A*
Length = 475
Score = 28.1 bits (63), Expect = 2.5
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 195 NKTKVPSVGVMPHESVLSSRQLREAADVAVV 225
N+ ++ V V P+ S+L+ ++L + AD VV
Sbjct: 174 NQDEMSDVVVQPYNSLLTLKRLTQNADCLVV 204
>2yxo_A Histidinol phosphatase; metal-dependent, hydrolase; 1.60A {Thermus
thermophilus} PDB: 2yz5_A 2z4g_A
Length = 267
Score = 27.7 bits (62), Expect = 3.2
Identities = 20/134 (14%), Positives = 41/134 (30%), Gaps = 12/134 (8%)
Query: 1 MTTDLVDHVLQEVARRNEQFKPTTVNKLIELEIDPGT------LLAFDKNDINLGELRQ- 53
M + + L + R E+ + V +E + PGT LL D +G +
Sbjct: 51 MRLEALPFYLLALERVRERAQDLYVGIGLEADFHPGTEGFLAQLLRRYPFDYVIGSVHYL 110
Query: 54 -DKDKYLKDLTRDNTQLLINKIWELPTERRDEDIVATLPD----PTYILPREKPLPKITM 108
D + + +++ + ++ + L LP+ +
Sbjct: 111 GAWPLDHPDHQEEYAWRDLKEVFRAYFQEVEKAARSGLFHAIGHLDLPKKFGHRLPEEAL 170
Query: 109 TKWEEFALEKGIRK 122
+ E AL
Sbjct: 171 LELAEPALRAVAEA 184
>3h8l_A NADH oxidase; membrane protein, complete form, rossman-like fold,
oxidoreductase; HET: FAD; 2.57A {Acidianus ambivalens}
PDB: 3h8i_A*
Length = 409
Score = 27.8 bits (62), Expect = 3.9
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 214 RQLREAADVAVVSTASIGKYQPSLPL 239
R + ADV V++ + ++P+LP
Sbjct: 22 RLVGSKADVKVINKSRFSYFRPALPH 47
>3mwx_A Aldose 1-epimerase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2, isomerase; HET: MSE; 1.45A {Bacillus subtilis}
Length = 326
Score = 27.4 bits (61), Expect = 4.3
Identities = 7/64 (10%), Positives = 19/64 (29%)
Query: 30 ELEIDPGTLLAFDKNDINLGELRQDKDKYLKDLTRDNTQLLINKIWELPTERRDEDIVAT 89
+ D+ + G+L K D ++ ++ ++R + A
Sbjct: 189 LFSLTADQQWELDERLLPTGKLMDVPYKEALHEGMDLRHKQLDDVFLSSYQKRGGENQAV 248
Query: 90 LPDP 93
+
Sbjct: 249 IYHQ 252
>1udx_A The GTP-binding protein OBG; TGS domain, riken structural
genomics/proteomics initiative, RSGI, structural
genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1
c.37.1.8 d.242.1.1
Length = 416
Score = 26.7 bits (60), Expect = 6.8
Identities = 15/99 (15%), Positives = 28/99 (28%), Gaps = 24/99 (24%)
Query: 38 LLAFDKNDINLGELRQDKDKYLKD----------LTRDNTQLLINKIWEL---------- 77
L+A +K D+ E + L LT L + L
Sbjct: 273 LVALNKVDLLEEEAVKALADALAREGLAVLPVSALTGAGLPALKEALHALVRSTPPPEMP 332
Query: 78 -PTERRDEDI---VATLPDPTYILPREKPLPKITMTKWE 112
P R++ V + + Y + + + K +
Sbjct: 333 KPVPRKEVQAGVEVVPVAEGVYEVRAPEVERYLARIKGD 371
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.7 bits (58), Expect = 6.8
Identities = 9/57 (15%), Positives = 23/57 (40%), Gaps = 13/57 (22%)
Query: 134 LKEWVPTYGFKRRLAEK-------KHQWMLPVPANADPMEDQFAKKSAAQKERVARN 183
+++W ++RL E + +W A +++ ++ + Q E+ N
Sbjct: 87 IRKWREE--QRKRLQELDAASKVMEQEWR----EKAKKDLEEWNQRQSEQVEKNKIN 137
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
0.314 0.131 0.378
Gapped
Lambda K H
0.267 0.0719 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,746,697
Number of extensions: 226033
Number of successful extensions: 393
Number of sequences better than 10.0: 1
Number of HSP's gapped: 390
Number of HSP's successfully gapped: 26
Length of query: 242
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 151
Effective length of database: 4,160,982
Effective search space: 628308282
Effective search space used: 628308282
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: 42 (22.0 bits)
S2: 56 (25.4 bits)