RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14289
(297 letters)
>3iag_C Recombining binding protein suppressor of hairless; protein-DNA
complex, signaling, transcription, notch, activator,
alternative splicing; HET: XYL; 2.00A {Mus musculus}
PDB: 3brg_C* 3nbn_A 2f8x_C 3v79_C*
Length = 422
Score = 346 bits (888), Expect = e-118
Identities = 173/215 (80%), Positives = 190/215 (88%), Gaps = 1/215 (0%)
Query: 80 DQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQL 139
+RLTREAM YL++R D ++ILHAKVAQKSYGNEKRFFCPPPC+YL G GW+ ++EQ+
Sbjct: 2 PKRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCPPPCVYLMGSGWKKKKEQM 61
Query: 140 LREGESEQAAQLCAFIGIGNSDQDMQQLDLNNGKQYCAAKTLYISDSDKRKHFMLSVKMF 199
R+G SEQ +Q CAFIGIGNSDQ+MQQL+L GK YC AKTLYISDSDKRKHFMLSVKMF
Sbjct: 62 ERDGCSEQESQPCAFIGIGNSDQEMQQLNLE-GKNYCTAKTLYISDSDKRKHFMLSVKMF 120
Query: 200 YGSGHDIGVFTSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYLHVE 259
YG+ DIGVF SKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYLHVE
Sbjct: 121 YGNSDDIGVFLSKRIKVISKPSKKKQSLKNADLCIASGTKVALFNRLRSQTVSTRYLHVE 180
Query: 260 NGNFHASSTQWGAFTIHLLDDDESESEEFSVRDWF 294
GNFHASS QWGAF IHLLDDDESE EEF+VRD +
Sbjct: 181 GGNFHASSQQWGAFYIHLLDDDESEGEEFTVRDGY 215
>3brd_A LIN-12 and GLP-1 phenotype protein 1, isoform A; protein-DNA
complex, signaling, transcription, notch; HET: DNA;
2.21A {Caenorhabditis elegans} SCOP: b.1.18.1 b.2.5.8
b.42.7.1 PDB: 2fo1_A 1ttu_A* 3brf_A*
Length = 477
Score = 307 bits (787), Expect = e-102
Identities = 143/258 (55%), Positives = 177/258 (68%), Gaps = 39/258 (15%)
Query: 74 LHYRNDDQRLTREAMERYL--RDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEG 131
L + Q LT + M +L +++ + VI I HAKVAQKSYGNEKRFFCPPPCIYL G+G
Sbjct: 3 LGSGDSVQSLTSDRMIDFLSNKEKYECVISIFHAKVAQKSYGNEKRFFCPPPCIYLIGQG 62
Query: 132 WRLRQEQLLREGES------------------EQAAQLCAFIGIGNSDQDMQQLDLNNGK 173
W+L+++++ + ++ +QA +L A+IGIG+ + QQLD + GK
Sbjct: 63 WKLKKDRVAQLYKTLKASAQKDAAIENDPIHEQQATELVAYIGIGSDTSERQQLDFSTGK 122
Query: 174 Q--------------YCAAKTLYISDSDKRKHFMLSVKMFYGSGHDIGVFTSKRIKVISK 219
YCAAKTLYISDSDKRK+F L+ + FYG G +IG F S+RIKVISK
Sbjct: 123 VRHPGDQRQDPNIYDYCAAKTLYISDSDKRKYFDLNAQFFYGCGMEIGGFVSQRIKVISK 182
Query: 220 PSKKKQSLKNAD---LCIASGTKVALFNRLRSQTVSTRYLHVENGNFHASSTQWGAFTIH 276
PSKKKQS+KN D LCIASGTKVALFNRLRSQTVSTRYLHVE FHASST+WGAFTIH
Sbjct: 183 PSKKKQSMKNTDCKYLCIASGTKVALFNRLRSQTVSTRYLHVEGNAFHASSTKWGAFTIH 242
Query: 277 LLDDDE--SESEEFSVRD 292
L DD+ E++ F+VRD
Sbjct: 243 LFDDERGLQETDNFAVRD 260
>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 = 41.6 bits (97), Expect = 3e-04
Identities = 62/359 (17%), Positives = 100/359 (27%), Gaps = 139/359 (38%)
Query: 6 TDTDYLLIKELSDVILTIKPWVGRNQTHKSAPRKHIHYLPSKLTRYFAMIVCDPSQNKVH 65
DY +EL D+ T VG SA L S+L R KV
Sbjct: 165 NTDDYF--EELRDLYQTYHVLVGD-LIKFSAET-----L-SELIR------TTLDAEKVF 209
Query: 66 YEG-----W---------------VPHSL---------HYRNDDQRL--TREAMERYLRD 94
+G W +P S HY + L T + YL+
Sbjct: 210 TQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG 269
Query: 95 RSDMVIVILHAKVAQKS------YGNEKR-----FFCPPPCIYLYGEGWRLRQEQLLREG 143
+ ++ A ++ + + ++ FF G R
Sbjct: 270 ATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFI----------GVR---------- 309
Query: 144 ESEQAAQLCAFIGIGNSDQDMQQLDLNNGKQYCAAKTLYISDSDKRKHFMLSVKMFYGSG 203
+A + + + L N + MLS+
Sbjct: 310 -CYEAYPNTSL------PPSILEDSLENN--------------EGVPSPMLSIS------ 342
Query: 204 HDIGVFTSKRIKVISK-----PSKKKQ--SLKN-ADLCIASGTKVAL--FN-RLR----- 247
+ + ++K P+ K+ SL N A + SG +L N LR
Sbjct: 343 ---NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP 399
Query: 248 ----------SQ---TVSTRYLHVENGNFHASSTQWGAFTIHLLDDDESESEEFSVRDW 293
S+ S R+L V FH S A + + D + F+ +D
Sbjct: 400 SGLDQSRIPFSERKLKFSNRFLPV-ASPFH-SHLLVPA-SDLINKDLVKNNVSFNAKDI 455
Score = 28.9 bits (64), Expect = 2.4
Identities = 10/62 (16%), Positives = 18/62 (29%), Gaps = 19/62 (30%)
Query: 249 QTVSTRYLHVENGN----FHASSTQWGA-------FTIHL--------LDDDESESEEFS 289
STR L + +G+ + + F L DD+ + E
Sbjct: 2 DAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELV 61
Query: 290 VR 291
+
Sbjct: 62 GK 63
>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 = 37.9 bits (87), Expect = 0.004
Identities = 51/345 (14%), Positives = 97/345 (28%), Gaps = 91/345 (26%)
Query: 7 DTDYLLIKELSDVILTIKPWVGRNQTHKSAPRKHIHYLPSKLTRYFAMIVCDPSQNKVHY 66
++ +++ L ++ I P H S + IH + ++L R ++K +
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL--------KSKPY- 243
Query: 67 EGWVPHSLHYRND--DQRLTREAME---RYL---RDRSDMVIVILHAKVAQKSYGNEKRF 118
+ L + + + A + L R + V L A +
Sbjct: 244 ----ENCLLVLLNVQNAKAW-NAFNLSCKILLTTRFKQ--VTDFLSAATTTHISLDHHSM 296
Query: 119 -FCPPPCIYLYGEGWRLRQEQLLREGESEQAAQ----LCAFIGIGNSDQDMQQLDLNNGK 173
P L + R + L + + I S +D +N K
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDL-----PREVLTTNPRRLS--IIAESIRDGLAT-WDNWK 348
Query: 174 QY-CAAKTLYISDS-------DKRKHFMLSVKMFYGSGHDIGVF------TSKRIKVISK 219
C T I S + RK F + VF + + +I
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMF-----------DRLSVFPPSAHIPTILLSLIWF 397
Query: 220 PSKK-----------KQSLKNADLCIASGTKVALFNRLRSQTVSTRYLH---VENGNFHA 265
K K SL ++ + +++ L+ + + LH V++ N
Sbjct: 398 DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPK 457
Query: 266 SSTQWGAFTI------------HLLDDDESES-EEFSVRDWFTSL 297
+ HL + + E F R F
Sbjct: 458 TFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF--RMVFLDF 500
Score = 36.0 bits (82), Expect = 0.016
Identities = 41/239 (17%), Positives = 74/239 (30%), Gaps = 79/239 (33%)
Query: 12 LIKE-LSDVILTIKPWVGRNQTHKSAPRKHIHYLPSKLTRYFAMIV--CDPSQNKVHYEG 68
+I E + D + T W KH++ KLT + +P++ + ++
Sbjct: 332 IIAESIRDGLATWDNW------------KHVNC--DKLTTIIESSLNVLEPAEYRKMFDR 377
Query: 69 --------WVPHSL-------HYRNDDQRLTREAMERYL--RDRSDMVIVI--------- 102
+P L ++D + + + L + + I I
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKV 437
Query: 103 -------LHAKVAQKSYGNEKRFF---CPPPCI--YLYGE-GWRLRQ-EQLLREGESEQ- 147
LH + Y K F PP + Y Y G L+ E R
Sbjct: 438 KLENEYALHRSIVDH-YNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496
Query: 148 -------AAQLC----AFIGIGNSDQDMQQLDLNNGKQYCAAKTLYISDSDKRKHFMLS 195
++ A+ G+ +QQL K Y YI D+D + +++
Sbjct: 497 FLDFRFLEQKIRHDSTAWNASGSILNTLQQL-----KFYKP----YICDNDPKYERLVN 546
Score = 27.9 bits (61), Expect = 5.4
Identities = 24/182 (13%), Positives = 54/182 (29%), Gaps = 36/182 (19%)
Query: 58 DPSQNKVHYEGWVPHSLH-YRND-DQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNE 115
+ +++ Y+ + + ++ D + ++ + L I++ V +
Sbjct: 10 ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAV-SGTL--- 65
Query: 116 KRFFCPPPCIYLYGEGWRLRQEQLLREGESEQAAQLCAFIGIGNSDQDMQQLDLNNGKQY 175
R F W L +Q E+ Q F+ + L +N
Sbjct: 66 -RLF------------WTLLSKQ-------EEMVQ--KFVE--------EVLRINYKFLM 95
Query: 176 CAAKTLYISDSDKRKHFMLSVKMFYGSGHDIGVFTSKRIKVISKPSKKKQSLKNADLCIA 235
KT S + ++ Y + R++ K + L+ A +
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI 155
Query: 236 SG 237
G
Sbjct: 156 DG 157
>3bbn_H Ribosomal protein S8; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 134
Score = 29.8 bits (68), Expect = 0.52
Identities = 6/43 (13%), Positives = 17/43 (39%), Gaps = 3/43 (6%)
Query: 182 YISD---SDKRKHFMLSVKMFYGSGHDIGVFTSKRIKVISKPS 221
+I + +R + L + + + + +K +S+P
Sbjct: 44 FIENARKHQERNKYFLVLTLRHRRNKKGPYLNTFHLKRVSRPG 86
>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA
repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A
{Geobacillus}
Length = 670
Score = 31.0 bits (71), Expect = 0.58
Identities = 20/137 (14%), Positives = 43/137 (31%), Gaps = 9/137 (6%)
Query: 63 KVHYEGWVPH-SLHYRNDDQRLTREAMERYLRDRSDMVIVILHA-KVAQKSYGNEKRFFC 120
+ ++ Y R+ + + + D + + A + QK+ R
Sbjct: 59 SLAFDTIYAEGQRRYVESLSAYARQFLGQMEKPDVDAIEGLSPAISIDQKTTSRNPRSTV 118
Query: 121 PPPCIYLYGEGWRLRQEQLLREGESEQAAQLCAFIGIGNSDQDMQQLDLNNGKQYCAAKT 180
+ RL ++ R + ++ A + + L+L + A
Sbjct: 119 GTVT--EIYDYLRLLFARIGRLVGGKHIGEVTAM-SVTEALAFFDGLELTEKEAQIARLI 175
Query: 181 LY-ISDSDKRKHFMLSV 196
L I D R F+ +V
Sbjct: 176 LREIRD---RLGFLQNV 189
>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping;
1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB:
1qmp_A*
Length = 130
Score = 28.3 bits (64), Expect = 1.4
Identities = 6/23 (26%), Positives = 12/23 (52%)
Query: 79 DDQRLTREAMERYLRDRSDMVIV 101
DD R ++ Y+ + DM ++
Sbjct: 9 DDNRELVSLLDEYISSQPDMEVI 31
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 1.7
Identities = 6/32 (18%), Positives = 12/32 (37%)
Query: 132 WRLRQEQLLREGESEQAAQLCAFIGIGNSDQD 163
WR Q + L+E ++ + D +
Sbjct: 90 WREEQRKRLQELDAASKVMEQEWREKAKKDLE 121
>2x5f_A Aspartate_tyrosine_phenylalanine pyridoxal-5' phosphate-dependent
aminotransferase...; HET: PLP EPE; 1.80A {Staphylococcus
aureus}
Length = 430
Score = 27.7 bits (62), Expect = 4.6
Identities = 3/30 (10%), Positives = 13/30 (43%)
Query: 76 YRNDDQRLTREAMERYLRDRSDMVIVILHA 105
+ D T +++ L+ + ++++
Sbjct: 167 IFDKDGHYTTDSLVEALQSYNKDKVIMILN 196
>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein
structure initiative, NE SGX research center for
structural genomics; 2.04A {Staphylococcus aureus}
Length = 133
Score = 26.7 bits (60), Expect = 5.8
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 79 DDQRLTREAMERYLRDRSDMVIV 101
+DQ + R+AM + ++ D I+
Sbjct: 10 EDQNMLRQAMVQLIKLHGDFEIL 32
>3t0q_A AGR253WP; kinesin, alpha and beta proteins, P-loop containing
nucleosi triphosphate hydrolases, microtubule motor
protein; HET: ADP; 2.35A {Ashbya gossypii}
Length = 349
Score = 26.8 bits (60), Expect = 8.3
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 8/35 (22%)
Query: 16 LSDVILTIKPWVGRNQTHKSAPRKHIHYLPSKLTR 50
L DVI + A +++I + SKLT
Sbjct: 277 LGDVIYAL--------NTPDAGKRYIPFRNSKLTY 303
>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic
region; yeast protein, ATP binding protein; 2.25A
{Saccharomyces cerevisiae} SCOP: c.37.1.6
Length = 290
Score = 26.9 bits (58), Expect = 8.3
Identities = 28/154 (18%), Positives = 43/154 (27%), Gaps = 18/154 (11%)
Query: 9 DYLLIKELSDVILTIKPWVGRNQTHKSAPRKHIHYLPSKLTRYFAMIVCDPSQNKVHYEG 68
D L++E+ + I ++ K I + EG
Sbjct: 103 DMKLLQEVLNTIFNNNEHPDQDTVVLPKYDKSQFKGEGDRCPTGQKIKLPV--DIFILEG 160
Query: 69 WV-----PHSLHYRNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPP 123
W ND + L SD++ K F
Sbjct: 161 WFLGFNPILQGIENNDLLTGDMVDVNAKLFFYSDLLWRNPEIKSLG-------IVFTTDN 213
Query: 124 CIYLYGEGWRLRQEQLLRE--GESEQAAQLCAFI 155
+YG WRL+QE L G+ Q+ AF+
Sbjct: 214 INNVYG--WRLQQEHELISKVGKGMTDEQVHAFV 245
>2jjm_A Glycosyl transferase, group 1 family protein; anthrax, nucleotide,
carbohydrate; 3.10A {Bacillus anthracis} PDB: 3mbo_A*
Length = 394
Score = 26.9 bits (60), Expect = 8.8
Identities = 12/69 (17%), Positives = 23/69 (33%), Gaps = 15/69 (21%)
Query: 40 HIHY-LPSKLTRYFAMIVCDPSQNKVHYEGWVP-----HSLHYRNDDQRLTREAMERYLR 93
H+HY +P + Y A K + H + + R+
Sbjct: 104 HVHYAIPHAICAYLA---------KQMIGERIKIVTTLHGTDITVLGSDPSLNNLIRFGI 154
Query: 94 DRSDMVIVI 102
++SD+V +
Sbjct: 155 EQSDVVTAV 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
0.320 0.134 0.408
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,474,106
Number of extensions: 252725
Number of successful extensions: 578
Number of sequences better than 10.0: 1
Number of HSP's gapped: 572
Number of HSP's successfully gapped: 19
Length of query: 297
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 204
Effective length of database: 4,105,140
Effective search space: 837448560
Effective search space used: 837448560
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 (25.7 bits)