RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7177
(66 letters)
>3nhe_A Ubiquitin carboxyl-terminal hydrolase 2; cysteine protease,
substrate ENZY complex, hydrolase-protein binding
complex; HET: CME; 1.26A {Homo sapiens} PDB: 2hd5_A
2ibi_A
Length = 348
Score = 59.8 bits (145), Expect = 8e-13
Identities = 21/52 (40%), Positives = 26/52 (50%)
Query: 8 GVSAGHYTAYTLHPNTKEWHYFNDETVLEQRPQDEDFNNAYILFYKKRDEDS 59
GHYTAY P T EWH FND +V ++AY+LFY+ S
Sbjct: 295 TTMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASPPS 346
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo
sapiens}
Length = 367
Score = 59.2 bits (143), Expect = 1e-12
Identities = 18/56 (32%), Positives = 28/56 (50%)
Query: 3 VRPSKGVSAGHYTAYTLHPNTKEWHYFNDETVLEQRPQDEDFNNAYILFYKKRDED 58
+ GHYTAY + +W+YF+D V AY+LFY++RD++
Sbjct: 306 SNHYGAMGVGHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQRRDDE 361
>2gfo_A Ubiquitin carboxyl-terminal hydrolase 8; protease, thiol protease,
UBL conjugation pathway deubiquitinating enzyme, DUB,
zinc ribbon; 2.00A {Homo sapiens} SCOP: d.3.1.9 PDB:
3n3k_A
Length = 396
Score = 56.1 bits (135), Expect = 2e-11
Identities = 17/53 (32%), Positives = 23/53 (43%)
Query: 3 VRPSKGVSAGHYTAYTLHPNTKEWHYFNDETVLEQRPQDEDFNNAYILFYKKR 55
G+ GHYTAY + + W F+D V + + AYILFY
Sbjct: 343 SNHYGGLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYTSL 395
>3i3t_A Ubiquitin carboxyl-terminal hydrolase 21; hydrolase, structural
genomics consortium, SGC, activator, alternative
splicing, chromatin regulator, nucleus, polymorphism,
protease; 2.59A {Homo sapiens} PDB: 2y5b_A 3mtn_A
Length = 355
Score = 54.7 bits (131), Expect = 5e-11
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 2/52 (3%)
Query: 6 SKGVSAGHYTAYTLHPNTKEWHYFNDETVLEQRPQDEDFNNAYILFYKKRDE 57
S V GHYTA WH +ND V + Y+LFY+ E
Sbjct: 303 SGSVHYGHYTALCRCQT--GWHVYNDSRVSPVSENQVASSEGYVLFYQLMQE 352
>2ayn_A Ubiquitin carboxyl-terminal hydrolase 14; deubiquitinating enzymes,
DUB, USP14, proteasome, enzyme mechanism; 3.20A {Homo
sapiens} SCOP: d.3.1.9 PDB: 2ayo_A
Length = 404
Score = 53.1 bits (127), Expect = 2e-10
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 8/64 (12%)
Query: 8 GVSAGHYTAYTLHPNTKEWHYFNDETVLEQRPQD-------EDFNNAYILFYKKRDEDSD 60
S+GHY ++ + W F+D+ V P+D D++ AY+L Y R +
Sbjct: 340 SSSSGHYVSWVKRKQDE-WIKFDDDKVSIVTPEDILRLSGGGDWHIAYVLLYGPRRVEIM 398
Query: 61 VEVS 64
E S
Sbjct: 399 EEES 402
>3mhs_A Ubiquitin carboxyl-terminal hydrolase 8; multi-protein complex,
hydrolase-transcription regulator-Pro binding complex,
acetylation, cytoplasm; 1.89A {Saccharomyces cerevisiae}
PDB: 3mhh_A 3m99_A
Length = 476
Score = 51.9 bits (124), Expect = 5e-10
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 7/54 (12%)
Query: 8 GVSAGHYTAYTLHPNTKEWHYFNDETVLEQRPQDEDF---NNAYILFYKKRDED 58
V+ GHY A+ + W FND V ++ AY+LFY R +
Sbjct: 427 TVNEGHYIAFCKISGGQ-WFKFNDSMV---SSISQEEVLKEQAYLLFYTIRQVN 476
>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol
protease, UBL conjugation pathway, metal-binding,
zinc-finger,structural genomics; 2.80A {Homo sapiens}
Length = 854
Score = 50.3 bits (119), Expect = 2e-09
Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 4/48 (8%)
Query: 7 KGVSAGHYTAYTLHPNTKEWHYFNDETVLEQRPQDEDFNNAYILFYKK 54
GHY + W +ND+ V + + YI FY++
Sbjct: 808 TSTMCGHYVCHIKKEG--RWVIYNDQKVCAS--EKPPKDLGYIYFYQR 851
>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination,
hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9
PDB: 1nbf_A
Length = 353
Score = 46.0 bits (109), Expect = 6e-08
Identities = 15/69 (21%), Positives = 26/69 (37%), Gaps = 15/69 (21%)
Query: 8 GVSAGHYTAYTLHPNTKEWHYFNDETVLEQRPQD---EDF------------NNAYILFY 52
GHY Y +W F+D+ V ++ ++ NAY+L Y
Sbjct: 252 DNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVY 311
Query: 53 KKRDEDSDV 61
+ + S+V
Sbjct: 312 IRESKLSEV 320
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 45.4 bits (107), Expect = 1e-07
Identities = 15/69 (21%), Positives = 26/69 (37%), Gaps = 15/69 (21%)
Query: 8 GVSAGHYTAYTLHPNTKEWHYFNDETVLEQRPQD---EDF------------NNAYILFY 52
GHY Y +W F+D+ V ++ ++ NAY+L Y
Sbjct: 421 DNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVY 480
Query: 53 KKRDEDSDV 61
+ + S+V
Sbjct: 481 IRESKLSEV 489
>1vjv_A Ubiquitin carboxyl-terminal hydrolase 6; YFR010W, structural
genomics, JCSG, PSI, protein structure initiative; HET:
MSE; 1.74A {Saccharomyces cerevisiae} SCOP: d.3.1.9
Length = 415
Score = 43.0 bits (100), Expect = 9e-07
Identities = 14/59 (23%), Positives = 24/59 (40%), Gaps = 8/59 (13%)
Query: 6 SKGVSAGHYTAYT-LHPNTKEWHYFNDETVLEQRPQD-------EDFNNAYILFYKKRD 56
+GHY A+ + +W+ FND+ V + + ++A IL YK
Sbjct: 356 GANSESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSALILMYKGFG 414
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.2 bits (62), Expect = 0.15
Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 11/39 (28%)
Query: 24 KEWHYFNDE----TVLEQRPQDEDFNNAYILFYKKRDED 58
+EW+ E + R D+ F Y++ D D
Sbjct: 121 EEWNQRQSEQVEKNKINNRIADKAF-------YQQPDAD 152
>3hjc_A Heat shock protein 83-1; sleeping sickness, structura genomics,
stress response protein, chaperone, structural GE
consortium, SGC; 2.50A {Leishmania major}
Length = 444
Score = 28.0 bits (63), Expect = 0.17
Identities = 10/38 (26%), Positives = 13/38 (34%)
Query: 23 TKEWHYFNDETVLEQRPQDEDFNNAYILFYKKRDEDSD 60
+E YF L R + Y FYK D +
Sbjct: 10 GRENLYFQGHKPLWTRDPKDVTKEEYAAFYKAISNDWE 47
>2cg9_A ATP-dependent molecular chaperone HSP82; chaperone complex, HSP90,
heat shock protein, ATP-binding, heat shock,
nucleotide-binding, acetylation; HET: ATP; 3.1A
{Saccharomyces cerevisiae}
Length = 677
Score = 27.0 bits (60), Expect = 0.32
Identities = 9/38 (23%), Positives = 12/38 (31%)
Query: 23 TKEWHYFNDETVLEQRPQDEDFNNAYILFYKKRDEDSD 60
+E N L R + Y FYK D +
Sbjct: 264 VQEIEELNKTKPLWTRNPSDITQEEYNAFYKSISNDWE 301
>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural
protein; 2.80A {Mus musculus} SCOP: a.118.8.7
Length = 308
Score = 25.0 bits (54), Expect = 1.8
Identities = 9/45 (20%), Positives = 19/45 (42%), Gaps = 8/45 (17%)
Query: 25 EWHYFND--------ETVLEQRPQDEDFNNAYILFYKKRDEDSDV 61
E++ D E L++ ++ AYI + +ED++
Sbjct: 178 EYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNT 222
>2xrw_A Mitogen-activated protein kinase 8; transcription, MAPK signaling
pathways, linear binding motif; HET: ANP; 1.33A {Homo
sapiens} PDB: 1ukh_A 1uki_A* 2xs0_A* 3elj_A* 2h96_A*
2gmx_A* 2g01_A* 2no3_A* 3o2m_A* 3o17_A* 3pze_A* 3g9l_X*
2p33_A* 3cgf_A* 3cgo_A* 3g90_X* 2ok1_A* 3g9n_A* 1pmn_A*
1pmq_A* ...
Length = 371
Score = 24.6 bits (54), Expect = 2.6
Identities = 4/28 (14%), Positives = 10/28 (35%)
Query: 20 HPNTKEWHYFNDETVLEQRPQDEDFNNA 47
HP W+ ++ + D+ +
Sbjct: 319 HPYINVWYDPSEAEAPPPKIPDKQLDER 346
>2uva_G Fatty acid synthase beta subunits; fungal, dehydratase, enoyl
reductase, ketoacyl synthase, ketoacyl reductase; HET:
FMN; 3.10A {Thermomyces lanuginosus} PDB: 2uvc_G*
Length = 2060
Score = 24.2 bits (52), Expect = 4.1
Identities = 11/43 (25%), Positives = 21/43 (48%)
Query: 23 TKEWHYFNDETVLEQRPQDEDFNNAYILFYKKRDEDSDVEVSG 65
+KEW +D+ +E Q F ++ +K ++ S V+ G
Sbjct: 1451 SKEWFKLDDQHDIELLGQTLVFRLQSLVRFKNKNVYSSVQTIG 1493
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 23.9 bits (51), Expect = 4.5
Identities = 3/7 (42%), Positives = 5/7 (71%)
Query: 25 EWHYFND 31
EW F++
Sbjct: 62 EWRTFSN 68
>3ttj_A Mitogen-activated protein kinase 10; JNK3, protein kinase in
transferase-transferase inhibitor complex; HET: JBI;
2.10A {Homo sapiens} PDB: 3tti_A* 1jnk_A*
Length = 464
Score = 23.7 bits (51), Expect = 6.4
Identities = 4/28 (14%), Positives = 9/28 (32%)
Query: 20 HPNTKEWHYFNDETVLEQRPQDEDFNNA 47
HP W+ + + D+ +
Sbjct: 356 HPYINVWYDPAEVEAPPPQIYDKQLDER 383
>3ie4_A GRAM-negative binding protein 3; immunoglobulin fold, immune
system; 1.45A {Drosophila melanogaster}
Length = 107
Score = 23.3 bits (50), Expect = 7.4
Identities = 6/33 (18%), Positives = 13/33 (39%)
Query: 4 RPSKGVSAGHYTAYTLHPNTKEWHYFNDETVLE 36
+G+ AG + + W + + T L+
Sbjct: 37 EEMEGLEAGTWARDIVKAKNGRWTFRDRITALK 69
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
0.315 0.133 0.415
Gapped
Lambda K H
0.267 0.0623 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,022,880
Number of extensions: 44550
Number of successful extensions: 88
Number of sequences better than 10.0: 1
Number of HSP's gapped: 77
Number of HSP's successfully gapped: 21
Length of query: 66
Length of database: 6,701,793
Length adjustment: 37
Effective length of query: 29
Effective length of database: 5,668,716
Effective search space: 164392764
Effective search space used: 164392764
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.7 bits)