RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16237
(133 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 = 137 bits (346), Expect = 5e-39
Identities = 58/118 (49%), Positives = 79/118 (66%), Gaps = 1/118 (0%)
Query: 17 SVKELTEDTEIRLNLGYNNKRTKLKISGAVQKETPQEIERTVSSVDEDRKLYLQAAIVRI 76
EL DT I+L LGY NK+ ++ I+ ++ E QE E T +++EDRKL +QAAIVRI
Sbjct: 643 DEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRI 702
Query: 77 MKSRKQIRHNALIQEVLSQSKS-FAPSISMIKKCIESLIDKNYVERTANSTDEYSYVA 133
MK RK ++H L+ EVL+Q S F P + +IKKCI+ LI+K Y+ER D YSY+A
Sbjct: 703 MKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 760
>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 = 121 bits (303), Expect = 4e-33
Identities = 44/111 (39%), Positives = 67/111 (60%), Gaps = 1/111 (0%)
Query: 23 EDTEIRLNLGYNNKRTKLKISGAVQKETPQEIERTVSSVDEDRKLYLQAAIVRIMKSRKQ 82
+ + N + +K ++KI+ KET +E T V +DR+ + AAIVRIMK RK
Sbjct: 650 DGDKFIFNGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKT 709
Query: 83 IRHNALIQEVLSQSKSFAPSISMIKKCIESLIDKNYVERTANSTDEYSYVA 133
+ HN L+ E+ +Q K F +KK IESLID++Y+ER ++ ++Y YVA
Sbjct: 710 LGHNLLVSELYNQLK-FPVKPGDLKKRIESLIDRDYMERDKDNPNQYHYVA 759
>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 = 106 bits (267), Expect = 1e-31
Identities = 45/91 (49%), Positives = 60/91 (65%), Gaps = 1/91 (1%)
Query: 44 GAVQKETPQEIERTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKS-FAPS 102
A Q E+ E + T VD+DRK ++AAIVRIMKSRK+++HN L+ EV Q K+ F PS
Sbjct: 2 AAKQGESDPERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPS 61
Query: 103 ISMIKKCIESLIDKNYVERTANSTDEYSYVA 133
+IKK IE LI++ Y+ RT Y+YVA
Sbjct: 62 PVVIKKRIEGLIEREYLARTPEDRKVYTYVA 92
>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 = 111 bits (278), Expect = 1e-30
Identities = 40/125 (32%), Positives = 64/125 (51%), Gaps = 8/125 (6%)
Query: 17 SVKELTEDTEIRLNLGYN-------NKRTKLKISGAVQKETPQEIERTVSSVDEDRKLYL 69
S K+ TE T +N ++ KR K+ + G +Q T + E + + R L
Sbjct: 258 SPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERMREEENEGIVQLRILRT 317
Query: 70 QAAIVRIMKSRKQIRHNALIQEVLSQSKS-FAPSISMIKKCIESLIDKNYVERTANSTDE 128
Q AI++IMK RK+I + L E++ K+ F P MIK+ IE LI+ Y+ R + +
Sbjct: 318 QEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQIEWLIEHKYIRRDESDINT 377
Query: 129 YSYVA 133
+ Y+A
Sbjct: 378 FIYMA 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 = 101 bits (254), Expect = 1e-29
Identities = 42/91 (46%), Positives = 59/91 (64%), Gaps = 1/91 (1%)
Query: 43 SGAVQKETPQEIERTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKSFAPS 102
SG KET +E T V +DR+ + AAIVRIMK RK + HN L+ EV +Q K F
Sbjct: 6 SGIQMKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLK-FPVK 64
Query: 103 ISMIKKCIESLIDKNYVERTANSTDEYSYVA 133
+ +KK IESLID++Y+ER + ++Y+Y+A
Sbjct: 65 PADLKKRIESLIDRDYMERDKENPNQYNYIA 95
>3tdu_C Cullin-1, CUL-1; E2:E3, ligase-protein binding complex; 1.50A {Homo
sapiens} PDB: 3tdz_C
Length = 77
Score = 98.7 bits (246), Expect = 1e-28
Identities = 42/76 (55%), Positives = 56/76 (73%), Gaps = 1/76 (1%)
Query: 59 SSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKS-FAPSISMIKKCIESLIDKN 117
S+++EDRKL +QAAIVRIMK RK ++H L+ EVL+Q S F P + +IKKCI+ LI+K
Sbjct: 2 SNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKE 61
Query: 118 YVERTANSTDEYSYVA 133
Y+ER D YSY+A
Sbjct: 62 YLERVDGEKDTYSYLA 77
>3o2p_E Cell division control protein 53; ligase, cell cycle; 2.23A
{Saccharomyces cerevisiae} PDB: 3o6b_B
Length = 88
Score = 93.8 bits (233), Expect = 2e-26
Identities = 31/87 (35%), Positives = 56/87 (64%), Gaps = 2/87 (2%)
Query: 48 KETPQEIERTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKS-FAPSISMI 106
+ E ER ++ +R+++L+A IVRIMK+++ + H L+ E ++QS F +SM+
Sbjct: 3 NKRLTEDERIEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMV 62
Query: 107 KKCIESLIDKNYVERTANSTDEYSYVA 133
K+ I+SLI K Y++R + + Y+Y+A
Sbjct: 63 KRAIDSLIQKGYLQRGDDG-ESYAYLA 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 = 40.2 bits (93), Expect = 7e-05
Identities = 19/118 (16%), Positives = 36/118 (30%), Gaps = 26/118 (22%)
Query: 12 PGYIISVKELTEDTEIRLN--LGYNNKRTKLKISGAVQKETPQEIERTVSSVDEDRKLYL 69
P + + E D + N + I ++ P E RK++
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP----------AEYRKMFD 376
Query: 70 QAAIVRIMKSRKQIRHNALI-QEVLS----QSKSFAPSISMIKKCIESLIDKNYVERT 122
+ ++ +A I +LS + + K SL++K E T
Sbjct: 377 RLSV---------FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425
>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 = 35.8 bits (82), Expect = 0.003
Identities = 28/162 (17%), Positives = 43/162 (26%), Gaps = 70/162 (43%)
Query: 1 MATDNSMDGSCPGYIISVKELTEDTEIRLNLGYNNKRTKLKISGAVQKETPQE-IERTVS 59
M + +DG I KE+ E + T + + T
Sbjct: 1691 MIFETIVDGKLKTEKI-FKEINEHS------------TSYTFRS------EKGLLSATQ- 1730
Query: 60 SVDEDRKLYLQAAIV-------RIMKSRKQIR-------H-----NALIQEVLSQSKSFA 100
+ Q A+ +KS+ I H AL S A
Sbjct: 1731 --------FTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALA--------SLA 1774
Query: 101 PSISMIKKCIESLID---------KNYVERTANSTDEYSYVA 133
+S IESL++ + V R Y +A
Sbjct: 1775 DVMS-----IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA 1811
Score = 27.7 bits (61), Expect = 1.6
Identities = 16/75 (21%), Positives = 29/75 (38%), Gaps = 25/75 (33%)
Query: 40 LKISGAVQKETPQEIERTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLS---QS 96
L IS Q++ + +T S + +++ + ++V N V+S QS
Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQVEI--SLV-----------NGAKNLVVSGPPQS 385
Query: 97 ---------KSFAPS 102
K+ APS
Sbjct: 386 LYGLNLTLRKAKAPS 400
>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 = 28.8 bits (63), Expect = 0.41
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 8/29 (27%)
Query: 90 QEV--LSQS-KSF----APSISMIKKCIE 111
Q + L S K + AP+++ IK +E
Sbjct: 20 QALKKLQASLKLYADDSAPALA-IKATME 47
>3gqw_A Fatty acid AMP ligase; FAAL, E. coli, ATP-dependent binding enzyme
family,, structural genomics, PSI-2, protein structure
initiative; HET: ZZ9; 3.00A {Escherichia coli O6} PDB:
3pbk_A*
Length = 576
Score = 26.5 bits (59), Expect = 3.5
Identities = 8/50 (16%), Positives = 14/50 (28%), Gaps = 8/50 (16%)
Query: 51 PQEIERTVSSVDEDRKLYL--------QAAIVRIMKSRKQIRHNALIQEV 92
PQ+IE E + + + + R LI +
Sbjct: 473 PQDIEYIAEQEPEIHSGDAIAFVTAQEKIILQIQCRISDEERRGQLIHAL 522
>1f7c_A Rhogap protein; GTPase activating protein, RHO GTPase regulator, BH
domain, signaling protein; 2.40A {Gallus gallus} SCOP:
a.116.1.1
Length = 231
Score = 25.7 bits (57), Expect = 5.0
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 15/64 (23%)
Query: 62 DEDRKLYLQAAIVRIMKSRKQIRHNALIQ--EVLSQSKSFAPSISMIKKCIESLIDKNYV 119
+EDR+L+++A M R+ + ++ E +Q S SI IKKCI V
Sbjct: 2 EEDRRLWMEA-----MDGREPVYNSNKDNQSEGTAQLDSIGFSI--IKKCIH------AV 48
Query: 120 ERTA 123
E
Sbjct: 49 ETRG 52
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
0.312 0.127 0.333
Gapped
Lambda K H
0.267 0.0801 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,801,574
Number of extensions: 92495
Number of successful extensions: 180
Number of sequences better than 10.0: 1
Number of HSP's gapped: 171
Number of HSP's successfully gapped: 24
Length of query: 133
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 50
Effective length of database: 4,384,350
Effective search space: 219217500
Effective search space used: 219217500
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: 52 (23.7 bits)