RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16109
(129 letters)
>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain,
ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus}
SCOP: c.37.1.20 PDB: 1nsf_A*
Length = 272
Score = 123 bits (311), Expect = 4e-36
Identities = 53/122 (43%), Positives = 82/122 (67%), Gaps = 2/122 (1%)
Query: 2 TLQALRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIE 61
LQAL VLLKK PP+ +KLL++ TTS ++VL+++++L+ FS +HVPN++T E LL +E
Sbjct: 150 VLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALE 209
Query: 62 ESDVFSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGCL 121
F K+ I + + +V++GI+KLL LI+M+ Q++ YRV KFL L +EG
Sbjct: 210 LLGNFKDKERTTIAQQVKG--KKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGAS 267
Query: 122 DM 123
+
Sbjct: 268 PL 269
>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 = 32.5 bits (73), Expect = 0.032
Identities = 26/170 (15%), Positives = 55/170 (32%), Gaps = 42/170 (24%)
Query: 2 TLQALRVLLKKE--------PPRNKKLLVLCTTSCRE--------VLEDLK-----ILSK 40
+ +L KE L L T + V E L+ ++S
Sbjct: 38 VQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSP 97
Query: 41 FSAVLHVPNLSTP---EHLLNVIEESDVFSK------KQVQEIERYLHQHKARVFVGIRK 91
P++ T E + ++ VF+K + ++ + L + + V I
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG 157
Query: 92 LLG----------LIDMARQIEENYRV--MKFLTKLEDEGCLDMGTSILH 129
+LG + Q + ++++ + E L+M +L+
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
Score = 32.1 bits (72), Expect = 0.039
Identities = 17/101 (16%), Positives = 33/101 (32%), Gaps = 22/101 (21%)
Query: 6 LRVLLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDV 65
R L +K R+ + S L+ LK + I ++D
Sbjct: 500 FRFLEQK--IRHDSTAWNASGSILNTLQQLKFYKPY------------------ICDNDP 539
Query: 66 FSKKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENY 106
++ V I +L + + + K L+ +A E+
Sbjct: 540 KYERLVNAILDFLPKIEENLICS--KYTDLLRIALMAEDEA 578
Score = 32.1 bits (72), Expect = 0.043
Identities = 21/106 (19%), Positives = 37/106 (34%), Gaps = 26/106 (24%)
Query: 20 LLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVI----EESDVFS-------- 67
L VL R++ + L + + P LL++I +SDV
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPP--------SAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 68 ---KKQVQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMK 110
+KQ +E + + KL + R I ++Y + K
Sbjct: 415 SLVEKQPKESTISIPSIYLEL---KVKLENEYALHRSIVDHYNIPK 457
Score = 30.6 bits (68), Expect = 0.12
Identities = 23/112 (20%), Positives = 42/112 (37%), Gaps = 31/112 (27%)
Query: 3 LQALR-VLLKKEPPRN----------KKLLVLCTTSCREVLEDLKILSKFS-AV--LHVP 48
LR LL+ P +N K + L +V K+ K + L++
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVLGSGKTWVAL------DVCLSYKVQCKMDFKIFWLNLK 190
Query: 49 NLSTPEHLLNV-------IEESDVFSKKQVQEIERYLHQHKARVFVGIRKLL 93
N ++PE +L + I+ + I+ +H +A +R+LL
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE----LRRLL 238
Score = 27.9 bits (61), Expect = 1.2
Identities = 16/95 (16%), Positives = 29/95 (30%), Gaps = 20/95 (21%)
Query: 27 SCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDVFSKKQVQEIERYLHQHKARVF 86
+C L++L K + S +H N+ E+ R L
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ----AELRRLLKSKPYE-- 244
Query: 87 VGIRKLLGLIDMARQIEENYRVMK-FLTKLEDEGC 120
LL L+++ +N + F + C
Sbjct: 245 ---NCLLVLLNV-----QNAKAWNAF-----NLSC 266
Score = 26.4 bits (57), Expect = 3.2
Identities = 15/105 (14%), Positives = 33/105 (31%), Gaps = 33/105 (31%)
Query: 27 SCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEES--DVFSKKQVQEIERYLHQHKAR 84
+++L F + +++ + SK+++ I K
Sbjct: 17 QYKDILSVF--EDAFVDNFDCKD----------VQDMPKSILSKEEIDHI----IMSKDA 60
Query: 85 VFVGIRKLLGLID----------MARQIEENYRVMKFL-TKLEDE 118
V G +L + + + NY KFL + ++ E
Sbjct: 61 V-SGTLRLFWTLLSKQEEMVQKFVEEVLRINY---KFLMSPIKTE 101
>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 = 30.4 bits (68), Expect = 0.14
Identities = 14/69 (20%), Positives = 23/69 (33%), Gaps = 18/69 (26%)
Query: 58 NVIEESDVFSKKQ----VQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLT 113
+V +D K + +I + F G + ++I ENY M F
Sbjct: 1644 DVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK--------GKRIRENYSAMIF-- 1693
Query: 114 KLEDEGCLD 122
E +D
Sbjct: 1694 ----ETIVD 1698
Score = 29.6 bits (66), Expect = 0.32
Identities = 15/88 (17%), Positives = 29/88 (32%), Gaps = 27/88 (30%)
Query: 52 TPEHLLNVIEESDVFSKKQVQEIERYLHQHK---------ARVFV--G-IRKLLGLIDMA 99
P +L++ + + V + +L K A+ V G + L GL
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 100 RQIE-----ENYRV----------MKFL 112
R+ + + R+ +FL
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFL 421
>2kw7_A Conserved domain protein; structural genomics, northeast
structural genomics consortiu PSI-2, protein structure
initiative; NMR {Porphyromonas gingivalis}
Length = 157
Score = 29.8 bits (67), Expect = 0.14
Identities = 10/49 (20%), Positives = 17/49 (34%), Gaps = 4/49 (8%)
Query: 43 AVLHVPNLSTPEHLLNVIEESDVFSKKQVQEIERYL----HQHKARVFV 87
VPN+ + V +E+ + S Q + + L H V
Sbjct: 5 KPEDVPNVQLADSTRLVTDEAGLLSNAQEEVMNGRLRAIRSSHAVEFAV 53
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 0.18
Identities = 11/68 (16%), Positives = 20/68 (29%), Gaps = 22/68 (32%)
Query: 60 IEESDVFSKKQVQEI---------ERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMK 110
++E D SK QE E Q + + K R ++
Sbjct: 98 LQELDAASKVMEQEWREKAKKDLEEWNQRQSEQ-----VEK---NKINNRIADK-----A 144
Query: 111 FLTKLEDE 118
F + + +
Sbjct: 145 FYQQPDAD 152
>4do7_A Amidohydrolase 2; enzyme function initiative, EFI, structural
TIM-barrel fold, putative lactonase; 1.70A {Burkholderia
multivorans} PDB: 4dlm_A 4dnm_A* 4dlf_A
Length = 303
Score = 27.0 bits (59), Expect = 1.7
Identities = 5/48 (10%), Positives = 15/48 (31%)
Query: 73 EIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGC 120
++ + + + G R L R ++ + + L+
Sbjct: 89 QLAERVAEWRGTKLRGFRHQLQDEADVRAFVDDADFARGVAWLQANDY 136
>1l7a_A Cephalosporin C deacetylase; structural genomics, alpha-beta-alpha
sandwich, PSI, protein structure initiative; 1.50A
{Bacillus subtilis} SCOP: c.69.1.25 PDB: 1odt_C 1ods_A
3fvt_A 3fvr_A 3fyu_A* 2xlb_A 2xlc_A 3fyt_A* 3fyu_B*
Length = 318
Score = 25.9 bits (57), Expect = 4.7
Identities = 5/21 (23%), Positives = 9/21 (42%)
Query: 33 EDLKILSKFSAVLHVPNLSTP 53
+ +K LS F + + P
Sbjct: 240 QAMKTLSYFDIMNLADRVKVP 260
>1jr2_A Uroporphyrinogen-III synthase; heme biosynthesis, HEAM
biosynthesis, lyase; 1.84A {Homo sapiens} SCOP:
c.113.1.1
Length = 286
Score = 25.1 bits (55), Expect = 7.8
Identities = 13/95 (13%), Positives = 26/95 (27%), Gaps = 15/95 (15%)
Query: 9 LLKKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLH-------VPNLSTPEHLLNVIE 61
+ LL C RE+L K L + V + +L +
Sbjct: 149 YICSRESSALPLLFPCGNLKREILP--KALKDKGIAMESITVYQTVAHPGIQGNLNSYYS 206
Query: 62 ESD------VFSKKQVQEIERYLHQHKARVFVGIR 90
+ FS + +++ + I+
Sbjct: 207 QQGVPASITFFSPSGLTYSLKHIQELSGDNIDQIK 241
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
0.323 0.138 0.386
Gapped
Lambda K H
0.267 0.0531 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,948,439
Number of extensions: 111416
Number of successful extensions: 290
Number of sequences better than 10.0: 1
Number of HSP's gapped: 287
Number of HSP's successfully gapped: 45
Length of query: 129
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 46
Effective length of database: 4,384,350
Effective search space: 201680100
Effective search space used: 201680100
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 (21.9 bits)
S2: 52 (24.3 bits)