RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4179
(89 letters)
>1ldj_A Cullin homolog 1, CUL-1; cullin, ROC1, HRT1, zinc ring finger,
ligase, ubiquitin, ubiquitination, SCF; 3.00A {Homo
sapiens} SCOP: a.4.5.34 a.118.17.1 e.40.1.1 PDB: 1u6g_A
1ldk_A 1ldk_B 3rtr_A
Length = 760
Score = 111 bits (279), Expect = 1e-30
Identities = 72/89 (80%), Positives = 77/89 (86%)
Query: 1 MKTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVH 60
MKTE K EQETTHK+IEEDRKLLIQAAIVRIMKMRK L+HQQL+ EVL Q+S RFKPRV
Sbjct: 672 MKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVP 731
Query: 61 VIKKCIDILIEKEYLERTETHKDMYHYLA 89
VIKKCIDILIEKEYLER + KD Y YLA
Sbjct: 732 VIKKCIDILIEKEYLERVDGEKDTYSYLA 760
>1iuy_A Cullin-3 homologue; winged helix, structural genomics, riken
structural genomics/proteomics initiative, RSGI,
unknown function; NMR {Mus musculus} SCOP: a.4.5.34
Length = 92
Score = 98.0 bits (244), Expect = 8e-29
Identities = 44/88 (50%), Positives = 59/88 (67%)
Query: 2 KTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHV 61
+ E E++ T + +++DRK I+AAIVRIMK RK +QH LVAEV Q+ RF P V
Sbjct: 5 QGESDPERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPSPVV 64
Query: 62 IKKCIDILIEKEYLERTETHKDMYHYLA 89
IKK I+ LIE+EYL RT + +Y Y+A
Sbjct: 65 IKKRIEGLIEREYLARTPEDRKVYTYVA 92
>3tdu_C Cullin-1, CUL-1; E2:E3, ligase-protein binding complex; 1.50A
{Homo sapiens} PDB: 3tdz_C
Length = 77
Score = 94.9 bits (236), Expect = 8e-28
Identities = 60/75 (80%), Positives = 65/75 (86%)
Query: 15 HIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCIDILIEKEY 74
+IEEDRKLLIQAAIVRIMKMRK L+HQQL+ EVL Q+S RFKPRV VIKKCIDILIEKEY
Sbjct: 3 NIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEY 62
Query: 75 LERTETHKDMYHYLA 89
LER + KD Y YLA
Sbjct: 63 LERVDGEKDTYSYLA 77
>3dpl_C Cullin-5; ubiquitin, NEDD8, cullin, HOST-virus interaction,
receptor, UBL conjugation, UBL conjugation pathway,
acetylation, cytoplasm; 2.60A {Homo sapiens} PDB: 3dqv_C
Length = 382
Score = 102 bits (254), Expect = 8e-28
Identities = 29/89 (32%), Positives = 53/89 (59%)
Query: 1 MKTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVH 60
++ + +E ++ I + R L Q AI++IMKMRK + + QL E++ + F P+
Sbjct: 294 LQLTTERMREEENEGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKK 353
Query: 61 VIKKCIDILIEKEYLERTETHKDMYHYLA 89
+IK+ I+ LIE +Y+ R E+ + + Y+A
Sbjct: 354 MIKEQIEWLIEHKYIRRDESDINTFIYMA 382
>2do7_A Cullin-4B, CUL-4B; helix-turn-helix motif, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 101
Score = 94.7 bits (235), Expect = 2e-27
Identities = 40/88 (45%), Positives = 59/88 (67%), Gaps = 2/88 (2%)
Query: 2 KTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHV 61
E EQ +T + + +DR+ I AAIVRIMKMRKTL H LV+EV NQ L+F +
Sbjct: 10 MKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQ--LKFPVKPAD 67
Query: 62 IKKCIDILIEKEYLERTETHKDMYHYLA 89
+KK I+ LI+++Y+ER + + + Y+Y+A
Sbjct: 68 LKKRIESLIDRDYMERDKENPNQYNYIA 95
>2hye_C Cullin-4A, CUL-4A; beta propeller, ring finger, zinc finger,
propeller cluster, helical repeats, cullin repeats,
protein binding; HET: DNA; 3.10A {Homo sapiens} SCOP:
a.4.5.34 a.118.17.1 e.40.1.1 PDB: 4a0k_A* 4a0c_C 4a0l_E*
Length = 759
Score = 98.7 bits (245), Expect = 4e-26
Identities = 40/89 (44%), Positives = 59/89 (66%), Gaps = 2/89 (2%)
Query: 1 MKTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVH 60
E EQ +T + + +DR+ I AAIVRIMKMRKTL H LV+E+ NQ L+F +
Sbjct: 673 QMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLVSELYNQ--LKFPVKPG 730
Query: 61 VIKKCIDILIEKEYLERTETHKDMYHYLA 89
+KK I+ LI+++Y+ER + + + YHY+A
Sbjct: 731 DLKKRIESLIDRDYMERDKDNPNQYHYVA 759
>3o2p_E Cell division control protein 53; ligase, cell cycle; 2.23A
{Saccharomyces cerevisiae} PDB: 3o6b_B
Length = 88
Score = 90.4 bits (224), Expect = 7e-26
Identities = 33/88 (37%), Positives = 51/88 (57%), Gaps = 1/88 (1%)
Query: 2 KTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHV 61
+ E E K + +R++ ++A IVRIMK ++ L H LV E + Q RF +V +
Sbjct: 2 SNKRLTEDERIEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSM 61
Query: 62 IKKCIDILIEKEYLERTETHKDMYHYLA 89
+K+ ID LI+K YL+R + + Y YLA
Sbjct: 62 VKRAIDSLIQKGYLQRGDD-GESYAYLA 88
>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 = 30.2 bits (67), Expect = 0.064
Identities = 16/100 (16%), Positives = 37/100 (37%), Gaps = 20/100 (20%)
Query: 3 TELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRK-----TLQHQQLVAEVLNQISLRFKP 57
T + L+ + +E + LL++ R + + + ++AE + +
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346
Query: 58 RVHV--------IKKCIDILIEKEYLERTETHKDMYHYLA 89
HV I+ +++L EY + M+ L+
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEY-------RKMFDRLS 379
>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 = 26.2 bits (57), Expect = 1.8
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 6/44 (13%)
Query: 43 LVAEVLNQISLRFKP-----RVHVIKKCIDILIEKEYLERTETH 81
LV + L +S +P V+ C+ E YLE + H
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF-ENCYLEGNDIH 102
Score = 24.2 bits (52), Expect = 7.2
Identities = 4/24 (16%), Positives = 9/24 (37%)
Query: 22 LLIQAAIVRIMKMRKTLQHQQLVA 45
L++ A +K + + A
Sbjct: 1737 TLMEKAAFEDLKSKGLIPADATFA 1760
>1q16_B Respiratory nitrate reductase 1 beta chain; membrane protein,
electron-transfer, oxidoreductase; HET: FME MD1 HEM AGA
3PH; 1.90A {Escherichia coli} SCOP: d.58.1.5 PDB:
1r27_B* 1siw_B* 1y5i_B* 1y5l_B* 1y5n_B* 3ir5_B* 3ir6_B*
3ir7_B* 1y4z_B* 3egw_B*
Length = 512
Score = 25.7 bits (56), Expect = 2.1
Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 42 QLVAEVLNQ-ISLRFKPRVHVIKKCIDILIEKEYLERTETHKDMYHYLA 89
+ V L + +++R R + +D +E ++MY YLA
Sbjct: 400 KPVLRALKRMLAMRHYKRAETVDGKVDTRALEEVGLTEAQAQEMYRYLA 448
>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 = 24.5 bits (52), Expect = 5.2
Identities = 4/15 (26%), Positives = 9/15 (60%)
Query: 71 EKEYLERTETHKDMY 85
EK+ L++ + +Y
Sbjct: 18 EKQALKKLQASLKLY 32
>2lb5_A Sensor histidine kinase; PCB, transferase, GAF domain,
phosphoprotein; HET: CYC; NMR {Synechococcus SP} PDB:
2lb9_A*
Length = 208
Score = 24.6 bits (54), Expect = 5.4
Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 7/45 (15%)
Query: 7 LEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQL----VAEV 47
++ ET R LI +I R++L+ Q+ V EV
Sbjct: 1 MDTETWAAAARPSRDALINRITHQI---RQSLELDQILRATVEEV 42
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 0.135 0.368
Gapped
Lambda K H
0.267 0.0632 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,310,765
Number of extensions: 64187
Number of successful extensions: 144
Number of sequences better than 10.0: 1
Number of HSP's gapped: 142
Number of HSP's successfully gapped: 24
Length of query: 89
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 32
Effective length of database: 5,110,296
Effective search space: 163529472
Effective search space used: 163529472
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (23.6 bits)