RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9057
(279 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 = 99 bits (248), Expect = 4e-25
Identities = 24/133 (18%), Positives = 58/133 (43%), Gaps = 9/133 (6%)
Query: 153 HKLKSSQKDKVKRFISFTQTGELTAINCLSQNDWKLDLASDNYFQNPSAYYKEQKS---- 208
K S +++ ++ F S T+ + L +N W ++ A ++Y+ + ++ S
Sbjct: 9 RKDASPEQEAIESFTSLTKCDPKVSRKYLQRNHWNINYALNDYYDKEIGTFTDEVSTVAH 68
Query: 209 -SVDRKKLESLYSKYKDASEPDKILVEGIMKFLDDLSLSPESKLVLIIAWRFKAAAQCE- 266
V K+L ++ Y + + ++ ++KF+++L + E L +A E
Sbjct: 69 PPVYPKELTQVFEHYIN---NNLFDIDSLVKFIEELGYNLEDLATLCLAHLLGYKKLEEP 125
Query: 267 FSRDEFMNGMLEL 279
R++F++
Sbjct: 126 LKREDFLSTWFMQ 138
>3tdu_A DCN1-like protein 1; E2:E3, ligase-protein binding complex; 1.50A
{Homo sapiens} PDB: 3tdz_A
Length = 200
Score = 84.3 bits (208), Expect = 7e-20
Identities = 42/68 (61%), Positives = 54/68 (79%)
Query: 212 RKKLESLYSKYKDASEPDKILVEGIMKFLDDLSLSPESKLVLIIAWRFKAAAQCEFSRDE 271
RKKLE LY++YKD + +KI ++GI +F DDL+L P S VLIIAW+F+AA QCEFS+ E
Sbjct: 3 RKKLEQLYNRYKDPQDENKIGIDGIQQFCDDLALDPASISVLIIAWKFRAATQCEFSKQE 62
Query: 272 FMNGMLEL 279
FM+GM EL
Sbjct: 63 FMDGMTEL 70
>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 = 80.8 bits (199), Expect = 1e-18
Identities = 22/71 (30%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 208 SSVDRKKLESLYSKYKDASEPDKILVEGIMKFLDDLSLSPESKLVLIIAWRFKAAAQCEF 267
D+K + L+ YK+ + I EG+ + +D+ + P + L++AW+ KA++ CEF
Sbjct: 2 KRADKKAILELFQTYKE-PLGNYIGAEGLQRLFEDIQVDPSDVVTLVLAWKLKASSTCEF 60
Query: 268 SRDEFMNGMLE 278
S EF+ G+
Sbjct: 61 SEKEFVEGLAN 71
>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 = 58.1 bits (140), Expect = 9e-10
Identities = 39/222 (17%), Positives = 66/222 (29%), Gaps = 69/222 (31%)
Query: 68 KDTFQNNLKGPLEEFN-----TSISELFKIAPHVLFPEDEVYRNYSEDSSNNIDEEV--- 119
++ F L P E F T+ +EL + + V E S ++V
Sbjct: 34 QEQFNKILPEPTEGFAADDEPTTPAELV--GKFLGYVSSLV-----EPSKVGQFDQVLNL 86
Query: 120 --KELENNYRKTQLLTILAQGELKMLKEIECAMQDHKLKSSQKDKVKRFI-SFTQTGELT 176
E EN Y L ++ L A + + + K K I ++ +T
Sbjct: 87 CLTEFENCY--------LEGNDIHAL-----AAKLLQENDTTLVKTKELIKNY-----IT 128
Query: 177 AINCLSQNDWK------LDLASDN----Y--F--Q-NPSAYYKEQKSSVDRKKLESLYSK 221
A + K + F Q N Y++E L LY
Sbjct: 129 ARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE---------LRDLYQT 179
Query: 222 YKDASEPDKILVEGIMKFLDDLSLSPESKLVL------IIAW 257
Y L++ + L +L + + I+ W
Sbjct: 180 YHVLVGD---LIKFSAETLSELIRTTLDAEKVFTQGLNILEW 218
>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 = 52.5 bits (125), Expect = 7e-08
Identities = 33/291 (11%), Positives = 73/291 (25%), Gaps = 97/291 (33%)
Query: 17 FGYSTLTVQ--QDFERKLISLLNSNIKALQKKLSEKCKTD---QHKQNLEKCMQKFKDTF 71
G + + + + K+ ++ I L L + + Q L Q +
Sbjct: 161 SGKTWVALDVCLSY--KVQCKMDFKIFWL--NLKNCNSPETVLEMLQKL--LYQIDPNWT 214
Query: 72 QN-----NLKGPLEEFNTSISELFKIAPH-----VLFPEDEVY----------------- 104
N+K + + L K P+ VL V
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL---LNVQNAKAWNAFNLSCKILLT 271
Query: 105 -RNYS----EDSSNNIDEEVKELENNYRKTQLLTILAQ---GELKMLKEIECA------- 149
R ++ + ++ ++L + + L
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331
Query: 150 -----MQDHK-----LKSSQKDKVKRFISFTQTGELTAINCLSQNDWKLDLASDNYFQNP 199
++D K DK+ I +++N L +++
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIE-------SSLNVLEPAEYR------------ 372
Query: 200 SAYYKE----QKSS-VDRKKLESLYSKYKDASEPDKILVEGIMKFLDDLSL 245
+ S+ + L ++ + K V ++ L SL
Sbjct: 373 -KMFDRLSVFPPSAHIPTILLSLIW------FDVIKSDVMVVVNKLHKYSL 416
Score = 49.9 bits (118), Expect = 5e-07
Identities = 51/337 (15%), Positives = 100/337 (29%), Gaps = 103/337 (30%)
Query: 20 STLTVQQDFERKLISLLNSNIKALQKKLSEKCK---TDQHKQNLEKCM-QKFKDTFQNNL 75
L + +E L+ LLN + CK T + KQ + ++
Sbjct: 235 RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHH 294
Query: 76 KGPLEE----------FNTSISEL----FKIAPHV--LFPE---DEV-----YRNYSEDS 111
L + +L P + E D + +++ + D
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK 354
Query: 112 SNN-IDEEVKELE-NNYRKT-QLLTILAQGE------LKML----KEIECAMQDHKL-KS 157
I+ + LE YRK L++ L ++ + + + +KL K
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 158 S--QKDKVKRFISF--------TQTGELTAIN-----------CLSQNDWKLDLASDNYF 196
S +K + IS + A++ +D + D YF
Sbjct: 415 SLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD-LIPPYLDQYF 473
Query: 197 QNPSAYY-----KEQKSSVDRK----------KLES-------------------LYSKY 222
+ ++ ++ ++ R K+ Y Y
Sbjct: 474 YSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPY 533
Query: 223 KDASEPD-KILVEGIMKFL----DDLSLSPESKLVLI 254
++P + LV I+ FL ++L S + L+ I
Sbjct: 534 ICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRI 570
Score = 44.8 bits (105), Expect = 2e-05
Identities = 30/166 (18%), Positives = 59/166 (35%), Gaps = 23/166 (13%)
Query: 95 HVLFPEDEVYRNYSEDSSNNIDEEVKELENNYRKTQLLTILAQGELK-MLKEIECAMQDH 153
H+ F E Y + S D V + + +IL++ E+ ++ +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTL 65
Query: 154 KL----KSSQKDKVKRFISFTQTGELTAINCLSQN-DWKLDLASDNYFQNPSAYYKEQKS 208
+L S Q++ V++F+ L N + + Q PS +
Sbjct: 66 RLFWTLLSKQEEMVQKFVE----------EVLRINYKFLMSPIKTEQRQ-PSMMTRMYIE 114
Query: 209 SVDR-KKLESLYSKYKDASEPDKILVEGIMKFLDDLSLSPESKLVL 253
DR +++KY + S L + + L L L P +++
Sbjct: 115 QRDRLYNDNQVFAKY-NVSRLQPYLK--LRQAL--LELRPAKNVLI 155
Score = 40.2 bits (93), Expect = 6e-04
Identities = 15/130 (11%), Positives = 44/130 (33%), Gaps = 20/130 (15%)
Query: 3 DTSKLSESEYSVKFFGYSTLTVQQDFERKLISLLNSNIKALQKKL---SEKCKTDQHKQN 59
D +Y G+ ++ L ++ + + L++K+ S N
Sbjct: 463 DLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILN 522
Query: 60 LEKCMQKFKDTFQNN------LKGPLEEFNTSISELFKIAPH-------VLFPEDEVYRN 106
+ ++ +K +N L + +F I E + + ++ ++ ++
Sbjct: 523 TLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIF-- 580
Query: 107 YSEDSSNNID 116
E++ +
Sbjct: 581 --EEAHKQVQ 588
>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 = 38.8 bits (89), Expect = 5e-04
Identities = 8/23 (34%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 206 QKSSVDRKKLESLYSKYKDASEP 228
+K ++ KKL++ Y D S P
Sbjct: 18 EKQAL--KKLQASLKLYADDSAP 38
Score = 27.6 bits (60), Expect = 3.5
Identities = 8/36 (22%), Positives = 12/36 (33%), Gaps = 14/36 (38%)
Query: 57 KQNLEKCMQKFKDTFQNNLK------GPLEEFNTSI 86
KQ L+K Q +LK P ++
Sbjct: 19 KQALKK--------LQASLKLYADDSAPALAIKATM 46
>1v92_A NSFL1 cofactor P47; 3-helix bundle, recombination; NMR {Rattus
norvegicus} SCOP: a.5.2.3
Length = 46
Score = 32.5 bits (74), Expect = 0.011
Identities = 9/44 (20%), Positives = 22/44 (50%)
Query: 155 LKSSQKDKVKRFISFTQTGELTAINCLSQNDWKLDLASDNYFQN 198
+ ++D ++ F++ T E A L W L +A +++++
Sbjct: 1 MAEERQDALREFVAVTGAEEDRARFFLESAGWDLQIALASFYED 44
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 34.9 bits (81), Expect = 0.027
Identities = 20/84 (23%), Positives = 39/84 (46%), Gaps = 18/84 (21%)
Query: 100 EDEV-----YRNYSEDSSNNIDEEVKEL-ENNYRKT-QLLT-------ILAQGELK---- 141
ED R YSE+++ IDE V+ L E Y++ LL +A+ L+
Sbjct: 398 EDTYLGGYDVRQYSEETAKRIDEAVRRLIEEQYQRVKALLLEKREVLERVAETLLERETL 457
Query: 142 MLKEIECAMQDHKLKSSQKDKVKR 165
+E + ++ L++ ++ + +R
Sbjct: 458 TAEEFQRVVEGLPLEAPEEAREER 481
>2di4_A Zinc protease, cell division protein FTSH homolog;
metalloproteinase, hexamer-ring, hydrolase; 2.79A
{Aquifex aeolicus} SCOP: a.269.1.1
Length = 238
Score = 34.1 bits (79), Expect = 0.032
Identities = 12/52 (23%), Positives = 19/52 (36%), Gaps = 9/52 (17%)
Query: 91 KIAPHVLFPEDEVY-------RNYSEDSSNNIDEEVKEL-ENNYRK-TQLLT 133
K+ P + + + S D IDEEVK + Y K ++
Sbjct: 120 KVGPIAIRRVANPFLGGMTTAVDTSPDLLREIDEEVKRIITEQYEKAKAIVE 171
>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for
structural genomics, JCSG, protein structure initiative
ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima
MSB8}
Length = 515
Score = 34.2 bits (79), Expect = 0.047
Identities = 10/48 (20%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 26 QDFERKLISLLNSNIKALQKKLSEKCK-TDQHKQNLEKCMQKFKDTFQ 72
+ FE++ + ++ + + + K + T + ++ L+K +++FK TF+
Sbjct: 467 RRFEKEFLRFMHEKHQDILDDIKTKKELTSETEEKLKKAIEEFKTTFR 514
>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A
{Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB:
2cea_A* 3kds_E*
Length = 476
Score = 33.7 bits (78), Expect = 0.057
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 10/44 (22%)
Query: 100 EDEVY--------RNYSEDSSNNIDEEVKEL-ENNYRKT-QLLT 133
E EV+ RNYSE+ ++ IDEEVK++ N Y + +++
Sbjct: 385 EQEVFLGKEITRLRNYSEEVASKIDEEVKKIVTNCYERAKEIIR 428
>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP
ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11
PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A*
1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A*
2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...
Length = 510
Score = 33.4 bits (77), Expect = 0.071
Identities = 11/48 (22%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 26 QDFERKLISLLNSNIKALQKKLSEKCK-TDQHKQNLEKCMQKFKDTFQ 72
FE +S + S +AL K+ K +++ L++ + F F+
Sbjct: 462 TKFENAFLSHVISQHQALLGKIRTDGKISEESDAKLKEIVTNFLAGFE 509
>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability,
potential tentoxin binding hydrolase; 3.20A {Spinacia
oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*
Length = 507
Score = 32.7 bits (75), Expect = 0.14
Identities = 8/48 (16%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 26 QDFERKLISLLNSNIKALQKKLSEKCK-TDQHKQNLEKCMQKFKDTFQ 72
+ + +L + + +N Q+ +S T++ + L++ +Q+ + F
Sbjct: 455 RKYLVELRTYVKTNKPEFQEIISSTKTFTEEAEALLKEAIQEQMERFL 502
>2nyy_A Botulinum neurotoxin type A; neurotoxin, FAB, protein antibody
complex, toxin- system complex; 2.61A {Clostridium
botulinum} PDB: 2nz9_A 3bta_A 3v0a_A* 3v0b_A 3v0c_A
3zus_A 3zur_A
Length = 1295
Score = 26.7 bits (58), Expect = 9.7
Identities = 23/94 (24%), Positives = 40/94 (42%), Gaps = 9/94 (9%)
Query: 40 IKALQKKLSEKCKTDQHKQN-LEKCMQKFKDTFQNNLKGPLEEFNTSISELFKIAPHVLF 98
AL ++ K T Q N L K +K+ + ++ + L + NT I + K L
Sbjct: 677 TFALVSYIANKVLTVQTIDNALSKRNEKWDEVYKYIVTNWLAKVNTQIDLIRKKMKEALE 736
Query: 99 PEDEV--------YRNYSEDSSNNIDEEVKELEN 124
+ E Y Y+E+ NNI+ + +L +
Sbjct: 737 NQAEATKAIINYQYNQYTEEEKNNINFNIDDLSS 770
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 27.0 bits (60), Expect = 9.8
Identities = 18/123 (14%), Positives = 44/123 (35%), Gaps = 3/123 (2%)
Query: 26 QDFERKLISLLNSNIKALQKKLSEKCKTDQHKQNLEKCMQKFKDTFQ--NNLKGPLEEFN 83
+ L S+++ L+ E +L++ + K + K +EE+
Sbjct: 955 EITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWA 1014
Query: 84 TSISELFKIAPHVLFPEDEVYRNYSEDSSNNIDEEVKEL-ENNYRKTQLLTILAQGELKM 142
+ L ++ + + E+ + I ++ KE+ E +K T + +L
Sbjct: 1015 DKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELDLND 1074
Query: 143 LKE 145
+
Sbjct: 1075 ERL 1077
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
0.313 0.129 0.356
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: 3,878,344
Number of extensions: 213743
Number of successful extensions: 440
Number of sequences better than 10.0: 1
Number of HSP's gapped: 427
Number of HSP's successfully gapped: 47
Length of query: 279
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 187
Effective length of database: 4,133,061
Effective search space: 772882407
Effective search space used: 772882407
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (26.1 bits)