RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9055
(284 letters)
>3bq3_A Defective in cullin neddylation protein 1; ubiquitin,
ubiquitination,SCF,cullin, E3 E2, cell cycle, protein
degradation, ligase; 1.90A {Saccharomyces cerevisiae}
PDB: 2is9_A* 3o2p_A 3o6b_A 3tdi_B 2l4e_A 2l4f_A
Length = 270
Score = 241 bits (616), Expect = 9e-80
Identities = 65/284 (22%), Positives = 123/284 (43%), Gaps = 34/284 (11%)
Query: 1 MHKLKSSQKDKVKRFISFTQTGELTAINCLSQNDWKLDLASDNYFQNPSAYYKEQKSSVD 60
K S +++ ++ F S T+ + L +N W ++ A ++Y+ + ++ S+V
Sbjct: 8 KRKDASPEQEAIESFTSLTKCDPKVSRKYLQRNHWNINYALNDYYDKEIGTFTDEVSTVA 67
Query: 61 RKKLESLYSK--YKDASEPDKILVEGIMKFLDDLSLSPESKLVLIIAWRFKAAAQCE-FS 117
+ ++ + ++ ++KF+++L + E L +A E
Sbjct: 68 HPPVYPKELTQVFEHYINNNLFDIDSLVKFIEELGYNLEDLATLCLAHLLGYKKLEEPLK 127
Query: 118 RDEFMNGMLELGCDSIEKLKMRLPSLEAELKDNLNCDSIEKLKMRLPSLEAELKDNLKFK 177
R++F++ GC +I ++ + +L+ +L ++L F
Sbjct: 128 REDFLSTWFMQGCSTISDMQECIKTLDVKLHEDLQ----------------------YFT 165
Query: 178 DFYQFTFNYAKNPGQKGLDLDMAITYWNIVLQGRF------KFLHLWCTFLQEHHKRSIP 231
Y + FN +P +K +D D I YW + Q + L W FL++ K +I
Sbjct: 166 QIYNYAFNLILDPNRKDIDTDEGIQYWKLFFQPEYPVRMEPDLLEAWFRFLRDEGKTTIS 225
Query: 232 KDTWNLLLDFATA---TNEDMSNYDEEGAWPVLIDDFVEWAQPQ 272
KDTW +LL F + +S+YDE AWP +ID+F E Q Q
Sbjct: 226 KDTWRMLLLFFKRYPTIQKIISDYDETAAWPFIIDEFYECLQDQ 269
>3tdu_A DCN1-like protein 1; E2:E3, ligase-protein binding complex; 1.50A
{Homo sapiens} PDB: 3tdz_A
Length = 200
Score = 237 bits (605), Expect = 4e-79
Identities = 137/220 (62%), Positives = 162/220 (73%), Gaps = 23/220 (10%)
Query: 61 RKKLESLYSKYKDASEPDKILVEGIMKFLDDLSLSPESKLVLIIAWRFKAAAQCEFSRDE 120
RKKLE LY++YKD + +KI ++GI +F DDL+L P S VLIIAW+F+AA QCEFS+ E
Sbjct: 3 RKKLEQLYNRYKDPQDENKIGIDGIQQFCDDLALDPASISVLIIAWKFRAATQCEFSKQE 62
Query: 121 FMNGMLELGCDSIEKLKMRLPSLEAELKDNLNCDSIEKLKMRLPSLEAELKDNLKFKDFY 180
FM+GM EL CDSIEKLK ++P +E ELK+ +FKDFY
Sbjct: 63 FMDGMTEL-----------------------GCDSIEKLKAQIPKMEQELKEPGRFKDFY 99
Query: 181 QFTFNYAKNPGQKGLDLDMAITYWNIVLQGRFKFLHLWCTFLQEHHKRSIPKDTWNLLLD 240
QFTFN+AKNPGQKGLDL+MAI YWN+VL GRFKFL LW FL EHHKRSIPKDTWNLLLD
Sbjct: 100 QFTFNFAKNPGQKGLDLEMAIAYWNLVLNGRFKFLDLWNKFLLEHHKRSIPKDTWNLLLD 159
Query: 241 FATATNEDMSNYDEEGAWPVLIDDFVEWAQPQVKAANQPT 280
F+T +DMSNYDEEGAWPVLIDDFVE+A+PQ+ T
Sbjct: 160 FSTMIADDMSNYDEEGAWPVLIDDFVEFARPQIAGTKSTT 199
>3kev_A Galieria sulfuraria DCUN1 domain-containing prote; cullin,
neddylation, DCN-1, center for eukaryotic structural
genomics, PSI; HET: CSO MSE; 1.30A {Galdieria
sulphuraria}
Length = 199
Score = 229 bits (586), Expect = 3e-76
Identities = 83/221 (37%), Positives = 127/221 (57%), Gaps = 25/221 (11%)
Query: 57 SSVDRKKLESLYSKYKDASEPDKILVEGIMKFLDDLSLSPESKLVLIIAWRFKAAAQCEF 116
D+K + L+ YK+ + I EG+ + +D+ + P + L++AW+ KA++ CEF
Sbjct: 2 KRADKKAILELFQTYKE-PLGNYIGAEGLQRLFEDIQVDPSDVVTLVLAWKLKASSTCEF 60
Query: 117 SRDEFMNGMLELGCDSIEKLKMRLPSLEAELKDNLNCDSIEKLKMRLPSLEAELKDNLKF 176
S EF+ G+ L DS+EKLK +L SL E++D KF
Sbjct: 61 SEKEFVEGLANLQVDSLEKLKRKLSSLRKEIEDPS-----------------------KF 97
Query: 177 KDFYQFTFNYAKNPGQKGLDLDMAITYWNIVLQGRFKFLHLWCTFLQEHHKRSIPKDTWN 236
+ FYQF F Y+K P Q+ L + A+ W+++L+GRF L W FL +++ SI +DTWN
Sbjct: 98 RAFYQFVFQYSKEPSQRSLPAETAMALWDVLLRGRFSLLDSWLEFL-KNNTHSISRDTWN 156
Query: 237 LLLDFATATNEDMSNYDEEGAWPVLIDDFVEWAQPQVKAAN 277
LL DF+ + +D+S+YDE GAWPVLIDDFV+W + + +
Sbjct: 157 LLYDFSQLSEKDLSDYDENGAWPVLIDDFVKWLKHEQPNKH 197
>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 = 54.1 bits (129), Expect = 2e-08
Identities = 41/196 (20%), Positives = 70/196 (35%), Gaps = 43/196 (21%)
Query: 4 LKSSQKDKVKRFISFTQTGELTAINCLSQN-DWKLDLASDNYFQNPSAYYKEQKSSVDR- 61
L S Q++ V++F+ L N + + Q PS + DR
Sbjct: 71 LLSKQEEMVQKFVE----------EVLRINYKFLMSPIKTEQRQ-PSMMTRMYIEQRDRL 119
Query: 62 KKLESLYSKYKDASEPDKILVEGIMKFLDDLSLSPES-----------KLVLIIAWRFKA 110
+++KY + S L + + L L L P K + A
Sbjct: 120 YNDNQVFAKY-NVSRLQPYLK--LRQAL--LELRPAKNVLIDGVLGSGKTWV-------A 167
Query: 111 AAQCEFSR--DEFMNGM--LELG-CDSIEKLKMRLPSLEAELKDNLN--CDSIEKLKMRL 163
C + + + L L C+S E + L L ++ N D +K+R+
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227
Query: 164 PSLEAELKDNLKFKDF 179
S++AEL+ LK K +
Sbjct: 228 HSIQAELRRLLKSKPY 243
Score = 38.7 bits (89), Expect = 0.002
Identities = 34/233 (14%), Positives = 74/233 (31%), Gaps = 41/233 (17%)
Query: 56 KSSVDRKKLESLYSKYKDASEPDKILVEGIMKFLDDLSLSPESKLVLIIAWRFKAAAQCE 115
+ D K ++ + E D I++ S + + W + + E
Sbjct: 30 VDNFDCKDVQDMPKSILSKEEIDHIIMSK----------DAVSGTLRLF-WTLLS--KQE 76
Query: 116 FSRDEFMNGMLELGCDSI-EKLKM--RLPSLEAEL----KDNLNCDSIEKLKMRLPSLE- 167
+F+ +L + + +K R PS+ + +D L D+ K + L+
Sbjct: 77 EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP 136
Query: 168 -AELKDNLKFKDFYQFTFNYAKNPGQKG-----LDLDMAITYWNIVLQGRFKFLHLWCTF 221
+L+ L + G G + LD+ ++Y +Q + F W
Sbjct: 137 YLKLRQALLELRPAKNVLID----GVLGSGKTWVALDVCLSY---KVQCKMDFKIFWLNL 189
Query: 222 LQEHHKRSIPKDTWNLLLDFATATNEDMSNYDEEGAWPVLIDDFVEWAQPQVK 274
+ ++ + LL N+ I + Q +++
Sbjct: 190 KNCNSPETVLEMLQKLLYQI-------DPNWTSRSDHSSNIKLRIHSIQAELR 235
Score = 36.8 bits (84), Expect = 0.008
Identities = 54/383 (14%), Positives = 113/383 (29%), Gaps = 134/383 (34%)
Query: 2 HKLKSSQKDKVKRF-ISFTQTGELTAINCLSQNDWKLDLASD-NYFQNP--SAYYKEQKS 57
+K++ K+ F ++ + + + KL D N+ S+ K +
Sbjct: 174 YKVQCKMDFKI--FWLNL---KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228
Query: 58 SVDRKKLESLYSK-YKDASEPDKILVEGIMKFLDDL-------SLSPESKLVLI-----I 104
S+ + L SK Y++ +LV L ++ + + K++L +
Sbjct: 229 SIQAELRRLLKSKPYENC-----LLV------LLNVQNAKAWNAFNLSCKILLTTRFKQV 277
Query: 105 AWRFKAAAQCEFSRDEFMNGMLE----------LGCDSIEKLK--------MRLPSLEAE 146
AA S D + L C + L RL +
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC-RPQDLPREVLTTNPRRLSIIAES 336
Query: 147 LKDN---------LNCDSIEK-LKMRLPSLE-AELKDNLKFKDFYQFTFNYAKNPGQKGL 195
++D +NCD + ++ L LE AE + F F
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM--FDRLSVF---------PPSA 385
Query: 196 DLDMAI--TYWN---------IV--------LQGRFK----FLH-------LWCTFLQEH 225
+ + W +V ++ + K + +
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL 445
Query: 226 HKR-----SIPK--DTWNLLLDFATATNED-------------MSNYDEEGAWPVLIDDF 265
H+ +IPK D+ +L+ D + + + + ++ DF
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPP-----YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF 500
Query: 266 VEWAQPQVK----AANQPTSTQD 284
+ + +++ A N S +
Sbjct: 501 -RFLEQKIRHDSTAWNASGSILN 522
Score = 30.2 bits (67), Expect = 0.83
Identities = 40/243 (16%), Positives = 73/243 (30%), Gaps = 67/243 (27%)
Query: 4 LKSSQKDKVKRFISFTQTGELTAINCLSQNDWK---LDLA-----------------SDN 43
K DK+ I +++N L +++ L+ D
Sbjct: 347 WKHVNCDKLTTIIE-------SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDV 399
Query: 44 YFQNPSAYYKE--QKSSVDRKKLESLYS--------KYKDASEPD--KILVE--GIMKFL 89
+ + + S V+++ ES S K K +E + +V+ I K
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTF 459
Query: 90 D--DLSLSPESKLVLI-IAWRFKAAAQCEFSRDEFMNGMLELGCDSIEKLKMRLPSL--- 143
D DL + I K E F L+ +E+ K+R S
Sbjct: 460 DSDDLIPPYLDQYFYSHIGHHLKNIEHPE-RMTLFRMVFLDF--RFLEQ-KIRHDSTAWN 515
Query: 144 -EAELKDNLN---------CDSIEKLKMRLPSLEAELK---DNL---KFKDFYQFTFNYA 187
+ + L CD+ K + + ++ L +NL K+ D +
Sbjct: 516 ASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAE 575
Query: 188 KNP 190
Sbjct: 576 DEA 578
>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 = 43.1 bits (101), Expect = 9e-05
Identities = 61/375 (16%), Positives = 97/375 (25%), Gaps = 172/375 (45%)
Query: 45 F--Q-NPSAYYKEQKSSVDRKKLESLYSKYK-------------------DASEPDKILV 82
F Q N Y++E L LY Y + +K+
Sbjct: 160 FGGQGNTDDYFEE---------LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 83 EG--IMKFLDD---------LSLSPESKLVLI----IAWRFKAAAQCEFSRDEF---MNG 124
+G I+++L++ L P S LI +A A F+ E + G
Sbjct: 211 QGLNILEWLENPSNTPDKDYLLSIPIS-CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG 269
Query: 125 MLELGC-------------DSIE------KLKMRL------------------PSLEAEL 147
G DS E + + + PS+ +
Sbjct: 270 A--TGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDS 327
Query: 148 KDN--------LNC---------DSIEKLKMRLPS---LEAELK---DNLKF------KD 178
+N L+ D + K LP+ +E L N +
Sbjct: 328 LENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN--LVVSGPPQS 385
Query: 179 FYQFTFNYAKNPGQKGLDLDMAITYWNIVLQGR--F---------KFL------HLWCTF 221
Y K GLD Q R F +FL H
Sbjct: 386 LYGLNLTLRKAKAPSGLD------------QSRIPFSERKLKFSNRFLPVASPFH--SHL 431
Query: 222 LQEHHKRSIPKDTW--NLLLD--------FATATNEDMSNYDEEGAWPVLIDDF----VE 267
L I KD N+ + + T D+ + ++D V+
Sbjct: 432 LVPASDL-INKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSIS-ERIVDCIIRLPVK 489
Query: 268 WAQPQVKAANQPTST 282
W + Q +T
Sbjct: 490 W-----ETTTQFKAT 499
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 39.2 bits (90), Expect = 4e-04
Identities = 8/23 (34%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 55 QKSSVDRKKLESLYSKYKDASEP 77
+K ++ KKL++ Y D S P
Sbjct: 18 EKQAL--KKLQASLKLYADDSAP 38
Score = 27.6 bits (60), Expect = 3.1
Identities = 7/34 (20%), Positives = 15/34 (44%), Gaps = 15/34 (44%)
Query: 132 SIEKLKMRL--------PSLEAELKDNLNCDSIE 157
+++KL+ L P+L A + ++E
Sbjct: 21 ALKKLQASLKLYADDSAPAL-A-----IKA-TME 47
Score = 27.2 bits (59), Expect = 4.2
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 137 KMRLPSLEAELKDNLNC-DSIEKLKMRLPSLE 167
K L L+A LK L DS L ++ ++E
Sbjct: 19 KQALKKLQASLK--LYADDSAPALAIK-ATME 47
Score = 26.5 bits (57), Expect = 6.9
Identities = 12/44 (27%), Positives = 15/44 (34%), Gaps = 22/44 (50%)
Query: 160 KMRLPSLEAELKDNLKFKDFYQFTFNYAKN--PGQKGLDLDMAI 201
K L L+A LK L YA + P +AI
Sbjct: 19 KQALKKLQASLK--L-----------YADDSAPA-------LAI 42
>1v92_A NSFL1 cofactor P47; 3-helix bundle, recombination; NMR {Rattus
norvegicus} SCOP: a.5.2.3
Length = 46
Score = 32.1 bits (73), Expect = 0.014
Identities = 9/44 (20%), Positives = 22/44 (50%)
Query: 4 LKSSQKDKVKRFISFTQTGELTAINCLSQNDWKLDLASDNYFQN 47
+ ++D ++ F++ T E A L W L +A +++++
Sbjct: 1 MAEERQDALREFVAVTGAEEDRARFFLESAGWDLQIALASFYED 44
>2wtg_A Globin-like protein; metal-binding, oxygen transport; HET: HEM;
1.50A {Caenorhabditis elegans} PDB: 2wth_A*
Length = 159
Score = 30.9 bits (69), Expect = 0.24
Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 2/59 (3%)
Query: 223 QEHHKRSIPKDTWNLLLDFATATNEDMSNYDEEG--AWPVLIDDFVEWAQPQVKAANQP 279
H + W T E + + +++ AW L +F +Q +K +N P
Sbjct: 99 NRHRIYKMDPALWMAFFTVFTGYLESVGSLNDQQKAAWMALGKEFNAESQTHLKNSNLP 157
>1ygm_A Hypothetical protein BSU31320; alpha-helical bundle, integral
membrane protein; NMR {Bacillus subtilis subsp}
Length = 118
Score = 25.9 bits (56), Expect = 9.4
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 6/39 (15%)
Query: 217 LWCTFLQEHHKRSIPKDTWNLLLDFATATNEDMSNYDEE 255
++CTF ++HH++ W++LL+ +T E M EE
Sbjct: 5 MFCTFFEKHHRK------WDILLEKSTGVMEAMKVTSEE 37
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
0.317 0.133 0.398
Gapped
Lambda K H
0.267 0.0556 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,271,811
Number of extensions: 244947
Number of successful extensions: 504
Number of sequences better than 10.0: 1
Number of HSP's gapped: 489
Number of HSP's successfully gapped: 24
Length of query: 284
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 191
Effective length of database: 4,105,140
Effective search space: 784081740
Effective search space used: 784081740
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: 57 (26.1 bits)