RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4021
(65 letters)
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 0.18
Identities = 10/45 (22%), Positives = 16/45 (35%), Gaps = 12/45 (26%)
Query: 9 QNKKLAQRLEQKNRAEAELR------------SRIEQLEKRQTQD 41
Q K+L + E E R + EQ+EK + +
Sbjct: 94 QRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINN 138
Score = 23.2 bits (49), Expect = 8.3
Identities = 5/31 (16%), Positives = 12/31 (38%), Gaps = 1/31 (3%)
Query: 14 AQRLEQKNRAEAELRSRIEQLEKRQTQDDAV 44
++ EQ + + R + +Q D +
Sbjct: 125 QRQSEQVEKNKINNRIADKAF-YQQPDADII 154
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 26.6 bits (59), Expect = 0.43
Identities = 7/40 (17%), Positives = 21/40 (52%)
Query: 6 LQFQNKKLAQRLEQKNRAEAELRSRIEQLEKRQTQDDAVL 45
L+ + +L ++++++N+ L ++ LE + + L
Sbjct: 926 LENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKL 965
>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 = 26.5 bits (57), Expect = 0.53
Identities = 7/25 (28%), Positives = 13/25 (52%), Gaps = 3/25 (12%)
Query: 11 KKLAQRLE--QKNRAEA-ELRSRIE 32
KKL L+ + A A +++ +E
Sbjct: 23 KKLQASLKLYADDSAPALAIKATME 47
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 88
Score = 25.8 bits (57), Expect = 0.60
Identities = 8/33 (24%), Positives = 17/33 (51%)
Query: 3 IKVLQFQNKKLAQRLEQKNRAEAELRSRIEQLE 35
I +Q + +KL + + +L+ ++EQL
Sbjct: 54 ILSVQAEEQKLISEEDLLRKRREQLKHKLEQLG 86
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA,
BHLHZ, heterodimer, transcription/DNA complex; 1.80A
{Homo sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A
1nlw_B
Length = 83
Score = 25.4 bits (56), Expect = 0.85
Identities = 7/33 (21%), Positives = 15/33 (45%)
Query: 3 IKVLQFQNKKLAQRLEQKNRAEAELRSRIEQLE 35
I+ ++ +N Q ++ R A L ++ L
Sbjct: 49 IQYMRRKNHTHQQDIDDLKRQNALLEQQVRALG 81
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 25.2 bits (56), Expect = 1.4
Identities = 10/43 (23%), Positives = 15/43 (34%), Gaps = 3/43 (6%)
Query: 9 QNKKLAQRLEQKNRAEAELRSRIEQLEKRQTQDDAVLNVVVNE 51
Q + A L E LR ++E +K + N V
Sbjct: 417 QEFEKAASLRDT---EQRLREQVEDTKKSWKEKQGQENSEVTV 456
>3sde_A Paraspeckle component 1; RRM, anti parallel right handed
coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A
{Homo sapiens} PDB: 3sde_B
Length = 261
Score = 24.3 bits (53), Expect = 3.2
Identities = 8/33 (24%), Positives = 13/33 (39%)
Query: 3 IKVLQFQNKKLAQRLEQKNRAEAELRSRIEQLE 35
K + Q + + ++K AE E QL
Sbjct: 227 EKQQREQVDRNIREAKEKLEAEMEAARHEHQLM 259
>3i5c_A Fusion of general control protein GCN4 and WSPR R regulator
protein; C-DI-GMP, ggdef, leucine zipper, signaling
protein; HET: C2E; 1.94A {Pseudomonas aeruginosa PAO1}
PDB: 3i5b_A*
Length = 206
Score = 23.6 bits (52), Expect = 5.6
Identities = 7/31 (22%), Positives = 15/31 (48%)
Query: 11 KKLAQRLEQKNRAEAELRSRIEQLEKRQTQD 41
K+L ++E+ L + + +L+K D
Sbjct: 3 KQLEDKVEELLSKNYHLENEVARLKKLVNSD 33
>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD
subdomain; structural genomics, oceanospirillum SP.
MED92; 2.10A {Neptuniibacter caesariensis}
Length = 154
Score = 23.3 bits (51), Expect = 6.0
Identities = 7/28 (25%), Positives = 14/28 (50%)
Query: 1 MDIKVLQFQNKKLAQRLEQKNRAEAELR 28
+ + L+ +N +L + E KN+ E
Sbjct: 124 LQLAFLREENLRLQEETEAKNKQEGHHH 151
>3gnl_A Uncharacterized protein, DUF633, LMOF2365_1472; structural
genomics, PSI-2, protein structure initiative; 1.50A
{Listeria monocytogenes str}
Length = 244
Score = 23.3 bits (50), Expect = 6.8
Identities = 7/38 (18%), Positives = 16/38 (42%)
Query: 9 QNKKLAQRLEQKNRAEAELRSRIEQLEKRQTQDDAVLN 46
+ + Q + E +++I +LE + + VL
Sbjct: 199 TWQNIIQTISNNQPVSTENQAKIRELEHKIALVEDVLK 236
>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 = 23.3 bits (49), Expect = 7.4
Identities = 8/58 (13%), Positives = 23/58 (39%), Gaps = 7/58 (12%)
Query: 3 IKVLQFQNKKLAQRLEQKNRAEAELRSRIEQLEKRQTQDDAVLNVVVNESVYFPNLIV 60
+++LQ ++ ++ + ++ RI ++ L ++ Y L+V
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE-------LRRLLKSKPYENCLLV 249
>3cu0_A Galactosylgalactosylxylosylprotein 3-beta- glucuronosyltransferase
3; glcat-I, glycosyltransferase, heparan sulfate
biosynthesis, glycoprotein; HET: GAL UDP; 1.90A {Homo
sapiens} SCOP: c.68.1.7 PDB: 1kws_A* 1fgg_A*
Length = 281
Score = 23.1 bits (49), Expect = 7.7
Identities = 11/38 (28%), Positives = 15/38 (39%), Gaps = 4/38 (10%)
Query: 18 EQKNRAEAELRSRIEQLEKRQTQDDAVLNVVVNESVYF 55
EQ+N+A LR R + + V VYF
Sbjct: 105 EQRNKALDWLRGRGGAVGGEKDPPPPGTQGV----VYF 138
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 22.9 bits (49), Expect = 10.0
Identities = 9/42 (21%), Positives = 17/42 (40%)
Query: 11 KKLAQRLEQKNRAEAELRSRIEQLEKRQTQDDAVLNVVVNES 52
KKL Q + L + +L+ + Q + L +V +
Sbjct: 1927 KKLRDTEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMVQDQ 1968
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
0.319 0.132 0.356
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 880,775
Number of extensions: 37905
Number of successful extensions: 243
Number of sequences better than 10.0: 1
Number of HSP's gapped: 239
Number of HSP's successfully gapped: 58
Length of query: 65
Length of database: 6,701,793
Length adjustment: 36
Effective length of query: 29
Effective length of database: 5,696,637
Effective search space: 165202473
Effective search space used: 165202473
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: 51 (23.3 bits)