RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5991
(223 letters)
>3zrh_A Ubiquitin thioesterase zranb1; hydrolase, deubiquitinating enzyme,
WNT signaling, ovarian T domain; 2.23A {Homo sapiens}
Length = 454
Score = 192 bits (488), Expect = 3e-59
Identities = 115/223 (51%), Positives = 152/223 (68%), Gaps = 22/223 (9%)
Query: 3 EEWLNHYRRLQTKTSISRLTSKYFVCFFSEIENLPPSIQEQLFDELLDKEAQQQLEAEPH 62
E + + + LT ++IE+LPP++QE+LFDE+LD++ Q++LE E
Sbjct: 114 REIAASLHQRKGDFACYFLTDLVTFTLPADIEDLPPTVQEKLFDEVLDRDVQKELEEES- 172
Query: 63 PVINWSHELLDKEAQQQLEAEPHPVINWSHEVTAHLYALWNRSAGDCLLDSLMQATWGVF 122
P+INWS EL + + LYALWNR+AGDCLLDS++QATWG++
Sbjct: 173 PIINWSLELATRLDSR-------------------LYALWNRTAGDCLLDSVLQATWGIY 213
Query: 123 DRENVLRRALADSLAQASHLFYPRWKEYEDMH--ASLLHFSLDESQWEEDWASLVSLASQ 180
D+++VLR+AL DSL SH FY RWK++E + + LHFSL E QW+EDWA ++SLASQ
Sbjct: 214 DKDSVLRKALHDSLHDCSHWFYTRWKDWESWYSQSFGLHFSLREEQWQEDWAFILSLASQ 273
Query: 181 PGAALEQLHVFALAHILRRPIIVYGVKYVKSFRGEDIGYARFE 223
PGA+LEQ H+F LAHILRRPIIVYGVKY KSFRGE +GY RF+
Sbjct: 274 PGASLEQTHIFVLAHILRRPIIVYGVKYYKSFRGETLGYTRFQ 316
Score = 32.4 bits (73), Expect = 0.11
Identities = 9/19 (47%), Positives = 16/19 (84%)
Query: 1 MLEEWLNHYRRLQTKTSIS 19
M+E+WL+ YR+++ TS+S
Sbjct: 436 MVEKWLDRYRQIRPCTSLS 454
>3dkb_A Tumor necrosis factor, alpha-induced protein 3; OTU domain, DUB
domain, apoptosis, cytoplasm, DNA-binding, hydrolase,
metal-binding, nucleus; 2.50A {Homo sapiens} PDB: 2vfj_A
Length = 390
Score = 158 bits (400), Expect = 7e-47
Identities = 58/235 (24%), Positives = 93/235 (39%), Gaps = 48/235 (20%)
Query: 11 RLQTKTSISRLTSKYFVCFFS---------EIENLPPSIQEQLFDELLDKEAQQQLEAEP 61
R +T I + T+ F + P +E + L+D+ Q LE++
Sbjct: 42 RERTPEDIFKPTNGIIHHFKTMHRYTLEMFRTCQFCPQFREIIHKALIDRNIQATLESQK 101
Query: 62 HPVINWSHELLDKEAQQQLEAEPHPVINWSHEVTAHLYALWNRSAGDCLLDSLMQATWGV 121
+NW EV L AL G+CL+ + Q WGV
Sbjct: 102 -------------------------KLNWCREVRK-LVALKTNGDGNCLMHATSQYMWGV 135
Query: 122 FDRENVLRRALADSLAQ-ASHLFYPRWKEYEDMHASLL--HFSLDESQWEEDWASLVSLA 178
D + VLR+AL +L + + F RW+ + D W ++W +L+ +A
Sbjct: 136 QDTDLVLRKALFSTLKETDTRNFKFRWQLESLKSQEFVETGLCYDTRNWNDEWDNLIKMA 195
Query: 179 SQPG---------AALEQLHVFALAHILRRPIIVYGVKYVKSFR-GEDIGYARFE 223
S +LE++H+F L +ILRRPIIV K ++S G + +
Sbjct: 196 STDTPMARSGLQYNSLEEIHIFVLCNILRRPIIVISDKMLRSLESGSNFAPLKVG 250
>3phu_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase; 2.20A {Crimean-congo hemorrhagic
fever VIRUSIBAR10200}
Length = 219
Score = 38.2 bits (88), Expect = 8e-04
Identities = 8/77 (10%), Positives = 20/77 (25%), Gaps = 2/77 (2%)
Query: 130 RALADSLA--QASHLFYPRWKEYEDMHASLLHFSLDESQWEEDWASLVSLASQPGAALEQ 187
++A+ + H ++ + E + +
Sbjct: 45 HSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARLVGLSLEDYLKRMLSDNEWGST 104
Query: 188 LHVFALAHILRRPIIVY 204
L LA + II++
Sbjct: 105 LEASMLAKEMGITIIIW 121
>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 = 38.3 bits (88), Expect = 0.001
Identities = 23/167 (13%), Positives = 48/167 (28%), Gaps = 42/167 (25%)
Query: 1 MLEEWLNHYRRLQTKTSISRLTSKYFVCFFSEIENLPPSIQEQLFDEL--LDKEAQ---Q 55
+ + L + + + +LT+ + L P+ ++FD L A
Sbjct: 336 SIRDGLATWDNWK-HVNCDKLTTIIESS----LNVLEPAEYRKMFDRLSVFPPSAHIPTI 390
Query: 56 QLEAEPHPVINWSHELLDKEAQQQLEAEPHP---VINWSHEVTAHLYALWNRSAGDCLLD 112
L + W + K + + H V E T + L+
Sbjct: 391 LLS------LIWFD--VIKSDVMVVVNKLHKYSLVEKQPKESTISIP--------SIYLE 434
Query: 113 SLMQATWGVFDRENVLRRALADSLAQASHLFYPRWKEYEDMHASLLH 159
++ + E L R++ D Y K ++ +
Sbjct: 435 LKVKL-----ENEYALHRSIVDH--------YNIPKTFDSDDLIPPY 468
Score = 28.7 bits (63), Expect = 1.8
Identities = 26/154 (16%), Positives = 50/154 (32%), Gaps = 33/154 (21%)
Query: 7 NHYRRLQTKTSISRLTSKYFVCFFSE--IENLPPSIQEQLFDELLDKEAQQQLEAEPHPV 64
+H+ + +T + K + F + ++N + + +L KE + V
Sbjct: 2 HHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAV 61
Query: 65 -----INWSHELLDKE---AQQQLEAEPHPVINWSHEVTAHLYALWNRSAGDCLLDSLMQ 116
+ W+ LL K+ Q+ +E + L + + S+M
Sbjct: 62 SGTLRLFWT--LLSKQEEMVQKFVEEVLRINYKF----------LMSPIKTEQRQPSMMT 109
Query: 117 A--------TWG---VFDRENVLRRALADSLAQA 139
+ VF + NV R L QA
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA 143
Score = 27.1 bits (59), Expect = 5.5
Identities = 43/299 (14%), Positives = 83/299 (27%), Gaps = 96/299 (32%)
Query: 5 WLNHYRRLQTKTSISRLTSKY--FVCFFSEIENLPPSIQEQLFDELLDKEAQQQLEAEPH 62
WLN +T + L ++ + +I+ ++ + E ++ L+++P+
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI--HSIQAELRRLLKSKPY 243
Query: 63 P----VIN--WSHELL--------------DKEAQQQLEAEP-------HPVINWSHEVT 95
V+ + + K+ L A H + + +
Sbjct: 244 ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEV 303
Query: 96 AHLYALW-NRSAGD-----C----LLDSL-------MQATWGVFDRENV--LRRALADSL 136
L + + D S+ ATW + N L + SL
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSL 363
Query: 137 AQAS-----HLFY-----------PR------WK-----EYEDMHASLLHFSLDESQWEE 169
+F P W + + L +SL E Q +E
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 170 DWASLVSLA---SQPGAALEQLHVFALAHILRRPIIVYGVKYVKSFRGEDI------GY 219
S+ S+ LH R + Y + K+F +D+ Y
Sbjct: 424 STISIPSIYLELKVKLENEYALH--------RSIVDHYNIP--KTFDSDDLIPPYLDQY 472
>3pfy_A OTU domain-containing protein 5; structural genomics, structural
genomics consortium, SGC, PE C65 otubain, hydrolase;
HET: MSE PG4; 1.70A {Homo sapiens} PDB: 3tmp_A* 3tmo_A*
Length = 185
Score = 35.9 bits (82), Expect = 0.005
Identities = 20/117 (17%), Positives = 40/117 (34%), Gaps = 22/117 (18%)
Query: 107 GDCLLDSLMQATWGVFDRENVLRRALADSLAQASHLFYPRWKEYEDMHASLLHFSLDESQ 166
G CL ++ +G D V+R+ D L + + F
Sbjct: 68 GACLFRAVADQVYGDQDMHEVVRKHCMDYLMKNADYFSN--------------------Y 107
Query: 167 WEEDWASLVSLASQPGAALEQLHVFALAHILRRPIIVY--GVKYVKSFRGEDIGYAR 221
ED+ + ++ + + + A+A + RP+ VY + + +F G
Sbjct: 108 VTEDFTTYINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTEPINTFHGIHQNEDE 164
>3phx_A RNA-directed RNA polymerase L; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase-protein complex; 1.60A
{Crimean-congo hemorrhagic fever virus} PDB: 3phw_A
3pt2_A 3pse_A 3prp_A 3prm_A
Length = 185
Score = 35.4 bits (81), Expect = 0.006
Identities = 8/77 (10%), Positives = 20/77 (25%), Gaps = 2/77 (2%)
Query: 130 RALADSLA--QASHLFYPRWKEYEDMHASLLHFSLDESQWEEDWASLVSLASQPGAALEQ 187
++A+ + H ++ + E + +
Sbjct: 45 HSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARLVGLSLEDYLKRMLSDNEWGST 104
Query: 188 LHVFALAHILRRPIIVY 204
L LA + II++
Sbjct: 105 LEASMLAKEMGITIIIW 121
>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 = 31.9 bits (72), Expect = 0.15
Identities = 41/241 (17%), Positives = 81/241 (33%), Gaps = 87/241 (36%)
Query: 42 EQLFDELLDKEAQQQLEAEPHP----VINWSHELLDKEAQQQLEAEPH-----PVINW-- 90
+ F+EL + L H +I +S E L + + L+AE ++ W
Sbjct: 167 DDYFEEL------RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE 220
Query: 91 --------------------------SH-------------EVTAHLYALWNRSAGDCLL 111
+H E+ ++L S G L+
Sbjct: 221 NPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQG--LV 278
Query: 112 DSLMQA---TWGVFDRENVLRRALADS--LAQASHLFYPRWKEYEDMHASLLHFSLDESQ 166
++ A +W F +V R+A+ + + YP + S+L SL+ +
Sbjct: 279 TAVAIAETDSWESFF-VSV-RKAITVLFFIGVRCYEAYPN----TSLPPSILEDSLENN- 331
Query: 167 WEEDWAS-LVSLASQPGAALEQL------HVFALAHI---L---RRPIIVYGVKYVKSFR 213
E S ++S+++ ++ H+ A + L + ++V G +S
Sbjct: 332 --EGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG--PPQSLY 387
Query: 214 G 214
G
Sbjct: 388 G 388
>3hm6_X Plexin-B1; structural genomics consortium, SGC, membrane,
transmembrane receptor, cell membrane, glycoprotein,
phosphoprotein; 2.40A {Homo sapiens} PDB: 3sua_D*
3su8_X*
Length = 644
Score = 31.3 bits (70), Expect = 0.25
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 10 RRLQTKTSISRLTSKYFVCFFSEIENLPPSIQEQLFDELLDKEAQQQLEAEPHPVINW 67
R L K ++ + F S +P +++ FD LLD++AQQ ++ + W
Sbjct: 430 RLLSMKGTLQKFVDDLFQVILSTSRPVPLAVK-YFFD-LLDEQAQQHGISDQDTIHIW 485
>1yhl_A Farnesyl pyrophosphate synthase; farnesyl diphosphate synthase,
bisphosphonate, dimethyl ALLY pyrophosphate sulfate,
FPPS, transferase; HET: DMA RIS; 1.95A {Trypanosoma
cruzi} PDB: 1yhk_A* 1yhm_A* 3iba_A* 3ick_A* 3icm_A*
3icn_A* 3icz_A* 3id0_A*
Length = 362
Score = 29.0 bits (65), Expect = 1.2
Identities = 9/47 (19%), Positives = 14/47 (29%), Gaps = 7/47 (14%)
Query: 160 FSLDESQWEEDWASLVSLASQPGAALEQLHVFALAH-------ILRR 199
F E ++ A G +E L L ++RR
Sbjct: 62 FLAVTQHDEATKERILHDACVGGWMIEFLQAHYLVEDDIMDGSVMRR 108
>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3;
1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A*
1viy_A 1t3h_A 1n3b_A
Length = 218
Score = 27.5 bits (62), Expect = 3.2
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 7/39 (17%)
Query: 50 DKEAQQQLEAEPHPVINWSHELLDKEAQQQLEAEPHPVI 88
+ E + L A HP+I +E Q Q++ P +
Sbjct: 79 NPEEKNWLNALLHPLIQ-------QETQHQIQQATSPYV 110
>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2
function project, S2F, structural genomics, transferase;
HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1
Length = 206
Score = 27.5 bits (62), Expect = 3.3
Identities = 8/39 (20%), Positives = 13/39 (33%), Gaps = 7/39 (17%)
Query: 50 DKEAQQQLEAEPHPVINWSHELLDKEAQQQLEAEPHPVI 88
E + L HP I + +Q+L + P
Sbjct: 77 HDEDKLWLNNLLHPAIR-------ERMKQKLAEQTAPYT 108
>1twf_A B220, DNA-directed RNA polymerase II largest subunit;
transcription, mRNA, multiprotein complex; HET: UTP;
2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB:
1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A
1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A*
1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 27.8 bits (61), Expect = 3.9
Identities = 12/46 (26%), Positives = 19/46 (41%)
Query: 15 KTSISRLTSKYFVCFFSEIENLPPSIQEQLFDELLDKEAQQQLEAE 60
S + +Y V + L PS+ E + L D + Q L+ E
Sbjct: 887 GGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDEE 932
>3dyh_A Farnesyl pyrophosphate synthase; protein-bisphosphonate complex,
isoprene biosynthesis, transferase; HET: 721; 1.94A
{Trypanosoma brucei} PDB: 2ewg_A* 2i19_A* 2p1c_A*
3dyf_A* 3dyg_A* 2ogd_A* 3efq_A* 3egt_A*
Length = 390
Score = 26.8 bits (59), Expect = 6.2
Identities = 8/46 (17%), Positives = 13/46 (28%), Gaps = 7/46 (15%)
Query: 161 SLDESQWEEDWASLVSLASQPGAALEQLHVFALAH-------ILRR 199
+ E ++ A G +E L L + RR
Sbjct: 91 NNGEEDDGARRKRVLHDACVCGWMIEFLQAHYLVEDDIMDNSVTRR 136
>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus}
SCOP: c.37.1.1
Length = 203
Score = 26.3 bits (59), Expect = 6.6
Identities = 9/39 (23%), Positives = 16/39 (41%), Gaps = 7/39 (17%)
Query: 50 DKEAQQQLEAEPHPVINWSHELLDKEAQQQLEAEPHPVI 88
D E + LEA HP + + ++L P++
Sbjct: 78 DPERLKALEAVVHPEVR-------RLLMEELSRLEAPLV 109
>3by4_A OTU1, ubiquitin thioesterase OTU1; ubiquitin hydrolase,
deubiquitinase, cell cycle, hydrolase; 1.55A
{Saccharomyces cerevisiae} PDB: 3c0r_A
Length = 212
Score = 26.1 bits (57), Expect = 9.0
Identities = 11/100 (11%), Positives = 32/100 (32%), Gaps = 24/100 (24%)
Query: 107 GDCLLDSLMQATWGVFDRENV--LRRALADSLAQASHLFYPRWKEYEDMHASLLHFSLDE 164
CL ++ +G+F +++V LR ++ + F ++
Sbjct: 29 NSCLFHAI---AYGIFKQDSVRDLREMVSKEVLNNPVKF-------------------ND 66
Query: 165 SQWEEDWASLVSLASQPGAALEQLHVFALAHILRRPIIVY 204
+ ++ + + + + ++ L I V
Sbjct: 67 AILDKPNKDYAQWILKMESWGGAIEIGIISDALAVAIYVV 106
>1h6z_A Pyruvate phosphate dikinase; transferase, tropical parasite,
trypanosome; 3.00A {Trypanosoma brucei} SCOP: c.1.12.2
c.8.1.1 d.142.1.5 PDB: 2x0s_A
Length = 913
Score = 26.3 bits (58), Expect = 9.6
Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 19/72 (26%)
Query: 120 GVFDRENVLRRALADSLAQASHLFYPRWKEYEDMHASLLHFSLDESQWEEDWASLVSLAS 179
G+ RE + R + L+H +L+ + + LA+
Sbjct: 385 GLISREEAVLRIDPYQVDH------------------LMHPNLEPGAEKANKPIGRGLAA 426
Query: 180 QPGAALEQLHVF 191
PGAA+ Q+ VF
Sbjct: 427 SPGAAVGQV-VF 437
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 0.133 0.414
Gapped
Lambda K H
0.267 0.0506 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,599,866
Number of extensions: 203231
Number of successful extensions: 543
Number of sequences better than 10.0: 1
Number of HSP's gapped: 525
Number of HSP's successfully gapped: 31
Length of query: 223
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 133
Effective length of database: 4,188,903
Effective search space: 557124099
Effective search space used: 557124099
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: 55 (25.5 bits)