RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10763
(90 letters)
>3hqi_A Speckle-type POZ protein; SPOP, ubiquitin, puckered, nucleus, UBL
conjugation pathway, protein binding, ligase; 2.62A
{Homo sapiens} PDB: 3hu6_A
Length = 312
Score = 59.5 bits (144), Expect = 3e-12
Identities = 38/43 (88%), Positives = 41/43 (95%)
Query: 6 KSQRAYRFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
+SQRAYRFVQGKDWGFKKFIRR FLLDE NGLLP+DKLT+FCE
Sbjct: 93 ESQRAYRFVQGKDWGFKKFIRRGFLLDEANGLLPDDKLTLFCE 135
>3ivv_A Speckle-type POZ protein; protein binding, nucleus, UBL conjugation
pathway, ligase; 1.25A {Homo sapiens} PDB: 3ivq_A 3ivb_A
3hsv_A 3hqh_A 3hqm_A 3hql_A 2cr2_A
Length = 145
Score = 53.0 bits (127), Expect = 1e-10
Identities = 41/53 (77%), Positives = 46/53 (86%), Gaps = 4/53 (7%)
Query: 5 QKSQRAYRFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCEQNPLILVVK 57
+SQRAYRFVQGKDWGFKKFIRRDFLLDE NGLLP+DKLT+FCE + VV+
Sbjct: 96 MESQRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCE----VSVVQ 144
>2foj_A Ubiquitin carboxyl-terminal hydrolase 7; MATH domain, hydrolase;
1.60A {Homo sapiens} PDB: 1yze_A 1yy6_A 2foo_A 2fop_A
3mqr_A 3mqs_C 2f1w_A 2f1x_A 2f1y_A 2xxn_A
Length = 155
Score = 47.1 bits (112), Expect = 3e-08
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 12 RFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
F + DWGF F+ + D G + +DK+T
Sbjct: 108 FFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVF 144
>1lb6_A TNF receptor-associated factor 6; TRAF6-CD40 complex, signaling
protein; 1.80A {Homo sapiens} SCOP: b.8.1.1 PDB: 1lb5_A
1lb4_A
Length = 160
Score = 34.1 bits (78), Expect = 0.002
Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 8 QRAYRFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
QR K +G+ F+ + L + +D L + CE
Sbjct: 114 QRPTIPRNPKGFGYVTFMHLEAL--RQRTFIKDDTLLVRCE 152
>1d00_A Tumor necrosis factor receptor associated protein 2; B-sandwich,
protein-peptide complex, apoptosis; 2.00A {Homo sapiens}
SCOP: b.8.1.1 h.1.2.1 PDB: 1ca4_A 1d0j_A 1f3v_B 1czy_A
1d01_A 1d0a_A
Length = 168
Score = 27.7 bits (61), Expect = 0.47
Identities = 5/33 (15%), Positives = 10/33 (30%), Gaps = 1/33 (3%)
Query: 16 GKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
G F ++ N + +D + I
Sbjct: 131 NIASGCPLFCPVS-KMEAKNSYVRDDAIFIKAI 162
>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET:
SAH; 3.10A {Arabidopsis thaliana}
Length = 950
Score = 27.5 bits (60), Expect = 0.60
Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 11/53 (20%)
Query: 11 YRFVQGKD-WGFKKFIRRDFLLDEL----------NGLLPEDKLTIFCEQNPL 52
YR G G K R+ + +L G LP + L +FC Q+ L
Sbjct: 357 YRICCGMSPNGIYKISRQAVIAAQLPFAFTTKSNWRGPLPREILGLFCHQHRL 409
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 27.2 bits (60), Expect = 0.62
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 18 DWGFKKFIRRDFLLDELNGLLPEDKLTI 45
DWGF F+ + D G + +DK+T
Sbjct: 126 DWGFSNFMAWSEVTDPEKGFIDDDKVTF 153
>1ca9_A TRAF2, protein (TNF receptor associated factor 2); TNF signaling,
TRAF, adapter protein, cell surviVal; 2.30A {Homo
sapiens} SCOP: b.8.1.1 h.1.2.1 PDB: 1qsc_A 1czz_A
Length = 192
Score = 26.9 bits (59), Expect = 0.87
Identities = 5/33 (15%), Positives = 10/33 (30%), Gaps = 1/33 (3%)
Query: 16 GKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
G F + + N + +D + I
Sbjct: 155 NIASGCPLFCPVSKMEAK-NSYVRDDAIFIKAI 186
>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation,
nucleotide-binding, hydrolase, RNA-binding,
ATP-binding, DNA-binding, nuclear protein; 1.91A {Homo
sapiens}
Length = 185
Score = 26.4 bits (59), Expect = 1.2
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 26 RRDFLLDELNGLLPEDKLTIFCE 48
+R FLLD LN + +F E
Sbjct: 32 KRSFLLDLLNATGKDSLTLVFVE 54
>3da1_A Glycerol-3-phosphate dehydrogenase; NESG BHR167 Q9KDW6 X-RAY,
structural genomics, PSI-2, protein structure
initiative; HET: FAD; 2.70A {Bacillus halodurans}
Length = 561
Score = 26.5 bits (59), Expect = 1.2
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 27 RDFLLDELNGLLPEDKLT 44
RD++L N + P +LT
Sbjct: 311 RDYILAAANYMFPSLRLT 328
>3j0l_J Ribosomal protein L10; mammalia, translation, elongation cycle,
tRNA, ribosome; 9.80A {Oryctolagus cuniculus} PDB:
3j0q_J 3izc_I 3izs_I 3o58_J 3o5h_J 3u5e_I 3u5i_I
Length = 219
Score = 26.2 bits (57), Expect = 1.4
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 11 YRFVQGKDWGFKKFIRRDFL 30
+ + K WGF R ++L
Sbjct: 161 QKIILSKKWGFTNLDRPEYL 180
>2ex3_B Protein GP3, DNA terminal protein; DNA polymerase: protein primer
complex, transferase-replicat complex; HET: DNA; 3.00A
{Bacillus phage PHI29} SCOP: a.263.1.1
Length = 230
Score = 26.0 bits (56), Expect = 1.6
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 8/64 (12%)
Query: 2 YALQKSQRAYRFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCEQNPLILVVKTEIS 61
Y + Q F++ + F F D L++EL + P+D +F + +EIS
Sbjct: 139 YEKKMIQLQLNFIKSVEGSFNSFDAADELIEELKKIPPDDFYELF--------LRISEIS 190
Query: 62 FECF 65
FE F
Sbjct: 191 FEEF 194
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 26.0 bits (58), Expect = 1.6
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 27 RDFLLDELNGLLPEDKLTIFCEQ 49
R FLLD LN + +F E
Sbjct: 263 RSFLLDLLNATGKDSLTLVFVET 285
>3iz5_I 60S ribosomal protein L10 (L10E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_I 1s1i_I 3jyw_I
Length = 224
Score = 25.4 bits (55), Expect = 2.4
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 11 YRFVQGKDWGFKKFIRRDFL 30
+ + + WGF KF R +++
Sbjct: 163 QKIIHSRKWGFTKFTREEYV 182
>2rgh_A Alpha-glycerophosphate oxidase; flavoprotein oxidase,
oxidoreductase; HET: FAD; 2.30A {Streptococcus SP} PDB:
2rgo_A*
Length = 571
Score = 25.7 bits (57), Expect = 2.5
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 27 RDFLLDELNGLLPEDKLT 44
D+LLD +N PE +T
Sbjct: 331 VDYLLDVINHRYPEANIT 348
>2zkr_h 60S ribosomal protein L10; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 214
Score = 25.4 bits (55), Expect = 3.0
Identities = 7/20 (35%), Positives = 9/20 (45%)
Query: 11 YRFVQGKDWGFKKFIRRDFL 30
+ K WGF KF +F
Sbjct: 163 QKIHISKKWGFTKFNADEFE 182
>3iz6_R 40S ribosomal protein S15 (S19P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 2zkq_s 1s1h_S 3jyv_S*
Length = 154
Score = 24.7 bits (54), Expect = 4.2
Identities = 11/48 (22%), Positives = 19/48 (39%)
Query: 1 MYALQKSQRAYRFVQGKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
M ++ Q K F+K+ R LD L + +D + +F
Sbjct: 1 MADVEVETEVAAGAQPKKRTFRKYSYRGVDLDALLDMSTDDLVQLFPA 48
>2pa2_A 60S ribosomal protein L10; QM protein, , structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 2.50A {Homo sapiens} SCOP: d.41.4.1
Length = 151
Score = 24.6 bits (53), Expect = 4.3
Identities = 7/19 (36%), Positives = 9/19 (47%)
Query: 11 YRFVQGKDWGFKKFIRRDF 29
+ K WGF KF +F
Sbjct: 132 QKIHISKKWGFTKFNADEF 150
>2gkw_A TNF receptor-associated factor 3; CD40, NF-KB signaling, BAFF
receptor, TRAF3, apoptosis; 2.70A {Homo sapiens} PDB:
1kzz_A 1l0a_A 1zms_A 1rf3_A
Length = 192
Score = 24.6 bits (53), Expect = 5.2
Identities = 6/33 (18%), Positives = 11/33 (33%), Gaps = 2/33 (6%)
Query: 16 GKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
G F+ + L E + +D + I
Sbjct: 153 NIASGCPVFVAQTVL--ENGTYIKDDTIFIKVI 183
>4a17_H RPL10, 60S ribosomal protein L10; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_H 4a1c_H 4a1e_H
Length = 215
Score = 24.7 bits (53), Expect = 5.3
Identities = 6/20 (30%), Positives = 9/20 (45%)
Query: 11 YRFVQGKDWGFKKFIRRDFL 30
+ V + WGF K R +
Sbjct: 163 QKVVTSQKWGFTKLTRAQYS 182
>1flk_A TNF receptor associated factor 3; TNF signaling, TRAF3,
CD40-binding protein, apoptosis; 2.80A {Homo sapiens}
SCOP: b.8.1.1 h.1.2.1 PDB: 1fll_A
Length = 228
Score = 23.9 bits (51), Expect = 9.3
Identities = 6/33 (18%), Positives = 11/33 (33%), Gaps = 2/33 (6%)
Query: 16 GKDWGFKKFIRRDFLLDELNGLLPEDKLTIFCE 48
G F+ + L E + +D + I
Sbjct: 189 NIASGCPVFVAQTVL--ENGTYIKDDTIFIKVI 219
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
0.328 0.143 0.454
Gapped
Lambda K H
0.267 0.0526 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,367,054
Number of extensions: 65545
Number of successful extensions: 191
Number of sequences better than 10.0: 1
Number of HSP's gapped: 191
Number of HSP's successfully gapped: 25
Length of query: 90
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 33
Effective length of database: 5,110,296
Effective search space: 168639768
Effective search space used: 168639768
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.9 bits)