RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16758
(186 letters)
>3o65_A Putative ataxin-3-like protein; papain-like fold, hydrolase-protein
complex; 2.70A {Homo sapiens} PDB: 2aga_A 1yzb_A 2jri_A
2dos_A
Length = 191
Score = 149 bits (378), Expect = 2e-46
Identities = 50/183 (27%), Positives = 71/183 (38%), Gaps = 36/183 (19%)
Query: 9 EIIYHEKQMKELCALHALNNLFQNPKTFSKADLDEICINLSPQTW--------------- 53
+ I+HEKQ LCA H LNNL Q FS +L I L +
Sbjct: 3 DFIFHEKQEGFLCAQHCLNNLLQGE-YFSPVELASIAHQLDEEERMRMAEGGVTSEEYLA 61
Query: 54 --LNPHRSILGLGNYDINVIMTALQKKGFESNWFDRRKDPK-CIDQQKVEGYILNIPSQF 110
P ++ G + I VI AL+ G E F+ + K ID +I N
Sbjct: 62 FLQQPSENMDDTGFFSIQVISNALKFWGLEIIHFNNPEYQKLGIDPINERSFICNY---- 117
Query: 111 KIGKYVPTPIKRRHWLTVRNINGIYYNLDSKLDNPEHIGREEDLVEYLRDVLSDIDKELF 170
++HW T+R ++NL+S L PE I + L +L + +F
Sbjct: 118 -----------KQHWFTIRKFGKHWFNLNSLLAGPELIS-DTCLANFLARLQQQ-AYSVF 164
Query: 171 VVT 173
VV
Sbjct: 165 VVK 167
>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 = 39.5 bits (91), Expect = 4e-04
Identities = 26/228 (11%), Positives = 63/228 (27%), Gaps = 89/228 (39%)
Query: 36 FSKADLDEICINLSPQT------WL---NP----HRSILGLGNYDINVIMTALQK----K 78
SK ++D I ++ + W + + + + +M+ ++
Sbjct: 46 LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQP 105
Query: 79 GFESNWFDRRKDPKCIDQQKVEGYILNIPSQFK----------------------IGKYV 116
+ + ++D D Q Y ++ + GK
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW 165
Query: 117 -------PTPIKRR-----HWLTVRN----------INGIYYNLDSKL----DNPEHIG- 149
++ + WL ++N + + Y +D D+ +I
Sbjct: 166 VALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL 225
Query: 150 REEDLVEYLRD------------VLSDI-DKELF----------VVTR 174
R + LR VL ++ + + + + TR
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR 273
Score = 34.4 bits (78), Expect = 0.019
Identities = 33/191 (17%), Positives = 64/191 (33%), Gaps = 61/191 (31%)
Query: 8 QEIIYHEKQMKELCALHALNNLFQNPK--TFSKADLD-EICINLSPQTWLNPHRSILGLG 64
++I + M + LH + + + PK T S + E+ + L + L HRSI+
Sbjct: 397 FDVIKSD-VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL--HRSIVD-- 451
Query: 65 NYDINVIMTALQKKGFESNWFDRRKDPKCIDQQKVEGYILNIPSQFKIGKYVPTPIKRRH 124
+Y+I K F+S+ P +D Y + IG + H
Sbjct: 452 HYNI--------PKTFDSDDLI----PPYLD-----QYFYS-----HIG-H--------H 480
Query: 125 WLTVRNI------NGIYYN---LDSKLDNPEHIGREEDLVEYLRDVLSDIDKELFVVTRI 175
+ + ++ + L+ K+ H + + + L +
Sbjct: 481 LKNIEHPERMTLFRMVFLDFRFLEQKI---RHDSTAWNASGSILNTLQQLKF-------- 529
Query: 176 ENSKSYFKENS 186
K Y +N
Sbjct: 530 --YKPYICDND 538
>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 = 32.3 bits (73), Expect = 0.10
Identities = 20/126 (15%), Positives = 37/126 (29%), Gaps = 36/126 (28%)
Query: 64 GNYDINVIMTALQKKGFESNWFDRRKDPKCIDQQKVEGYILNIPSQFKIGKYVPTPIKRR 123
G +D V+ L + FE+ + D + + + T + +
Sbjct: 78 GQFD-QVLNLCLTE--FENC-YLEGND--------IHALAAKLLQE------NDTTLVKT 119
Query: 124 HWLTVRNINGIYYNLDSKLDNPEHIGREEDLVEYLRDVLSDIDKELFVV-----TRIENS 178
L ++N Y P L R V + +L + N+
Sbjct: 120 KEL-IKN----YITARIMAKRPFDKKSNSAL---FRAVGEG-NAQLVAIFGGQG----NT 166
Query: 179 KSYFKE 184
YF+E
Sbjct: 167 DDYFEE 172
>2zbk_A Type II DNA topoisomerase VI subunit A; DNA binding protein,
decatenation, ATPase, drug design, DNA-binding,
magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus
shibatae}
Length = 389
Score = 27.6 bits (60), Expect = 2.7
Identities = 11/88 (12%), Positives = 30/88 (34%), Gaps = 1/88 (1%)
Query: 40 DLDEICINLSPQTWLNPHRSILGLGNYDINVIMTALQKKGFESNWFDRRKDPKCIDQQKV 99
D+ + I+ + DI + F++ + + + K+
Sbjct: 301 DIFGNSRKKPYLSEAERKNYIIKAKDADIKRAEEIKNYEWFKTKAWQEEINTFLQRKAKL 360
Query: 100 EGYIL-NIPSQFKIGKYVPTPIKRRHWL 126
E + + +F +Y+P I + ++
Sbjct: 361 EIEAMASKGLKFLAFQYIPEKITNKDYI 388
>3qc0_A Sugar isomerase; TIM barrel, structural genomics, joint center for
structural genomics, JCSG, protein structure initiative,
PSI-biology,; HET: UNL PG4; 1.45A {Sinorhizobium
meliloti} PDB: 3ju2_A
Length = 275
Score = 27.4 bits (61), Expect = 2.8
Identities = 11/38 (28%), Positives = 17/38 (44%)
Query: 44 ICINLSPQTWLNPHRSILGLGNYDINVIMTALQKKGFE 81
IC L P + R ++G G D+ I ++ GF
Sbjct: 205 ICDWLVPTKDMLTDRGMMGDGVIDLKGIRRRIEAAGFH 242
>2b3f_A Glucose-binding protein; protein-carbohydrate complex, periplasmic
binding protein, galactose, GBP, sugar binding protein;
HET: GAL; 1.56A {Thermus thermophilus HB27} PDB: 2b3b_A*
Length = 400
Score = 27.1 bits (60), Expect = 4.0
Identities = 6/31 (19%), Positives = 12/31 (38%), Gaps = 6/31 (19%)
Query: 23 LHALNNLFQNPKTFSKADLDEICINLSPQTW 53
+H N ++ P ++ P+TW
Sbjct: 118 IHRSNVMWYLPAKLKGWGVNP------PRTW 142
>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export,
transcription; 2.12A {Homo sapiens}
Length = 203
Score = 26.4 bits (58), Expect = 4.5
Identities = 21/104 (20%), Positives = 36/104 (34%), Gaps = 12/104 (11%)
Query: 12 YHEKQMKELCALHALNNLF-------QNPKTFSKADLDEICINLSPQTWLNPHRSILGLG 64
YH Q E+ + NL ++ F + + I L T+ N + + L
Sbjct: 78 YHLMQFAEVTRAVSEGNLLLLHEALAKHEAFFIRCGIFLILEKLKIITYRNLFKKVYLLL 137
Query: 65 NY---DINVIMTALQKKGFESNWFDRRKD--PKCIDQQKVEGYI 103
++ + AL+ E D + I V+GYI
Sbjct: 138 KTHQLSLDAFLVALKFMQVEDVDIDEVQCILANLIYMGHVKGYI 181
>3c8d_A Enterochelin esterase; alpha-beta-alpha sandwich, IROD, iron
aquisition, structural genomics, PSI-2, protein
structure initiative; HET: CIT; 1.80A {Shigella flexneri
2a str} SCOP: b.1.18.20 c.69.1.2 PDB: 2b20_A 3c87_A*
3c8h_A 3mga_A*
Length = 403
Score = 26.9 bits (59), Expect = 5.1
Identities = 7/37 (18%), Positives = 10/37 (27%), Gaps = 6/37 (16%)
Query: 22 ALHALNNLFQNPKTFSKADLDEICINLSPQTWLNPHR 58
L AL P+ F ++ S W
Sbjct: 287 GLSALYAGLHWPERFGCV------LSQSGSYWWPHRG 317
>2hk0_A D-psicose 3-epimerase; TIM-barrel, isomerase; 2.00A {Agrobacterium
tumefaciens} PDB: 2hk1_A*
Length = 309
Score = 26.4 bits (58), Expect = 5.8
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 56 PHRSILGLGNYDINVIMTALQKKGFE 81
+R + G G + I AL+ +
Sbjct: 233 SNRRVPGKGRMPWHEIGLALRDINYT 258
>2qlc_A DNA repair protein RADC homolog; MCSG, structural genomics, PSI-2,
structure initiative; HET: DNA; 2.30A {Chlorobium
tepidum tls}
Length = 126
Score = 25.6 bits (57), Expect = 6.5
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 6/35 (17%)
Query: 138 LDSKLDNPEHIGREEDLVEYLRDVLSDIDKELFVV 172
++ K+ D+ EY++ + D KE V
Sbjct: 1 MNLKVKGAR------DVFEYMKGRIPDETKEHLFV 29
>1i39_A Ribonuclease HII, RNAse HII; mixed beta sheet, helix-loop-helix,
hydrolase; 1.95A {Archaeoglobus fulgidus} SCOP: c.55.3.1
PDB: 1i3a_A 3p83_D*
Length = 225
Score = 26.0 bits (58), Expect = 7.5
Identities = 7/30 (23%), Positives = 8/30 (26%), Gaps = 6/30 (20%)
Query: 114 KYVPTPIKRRHWLTVRNINGIYYNLDSKLD 143
R W TV N+ LD
Sbjct: 200 SGRIPSCVRMRWKTVSNL------RQKTLD 223
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP:
a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*
Length = 549
Score = 26.1 bits (57), Expect = 8.5
Identities = 18/142 (12%), Positives = 38/142 (26%), Gaps = 10/142 (7%)
Query: 42 DEICINLSPQTWLNPHRSILGLGNYDINVIMTALQKKGFESNWFDRRKDPKCIDQQKVEG 101
+ + P+ L +I + +N+ + ++
Sbjct: 15 TRLIHDFEPRDALTYLEGKNIFTEDHSELISKMSTRLERIANFLRIYRRQASELGPLIDF 74
Query: 102 YILNIPSQFK--IGKYVPTPIKRRHWLTVRNINGIY--YNLDSKLDN------PEHIGRE 151
+ N S + Y+ I L I + LD KL RE
Sbjct: 75 FNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIRE 134
Query: 152 EDLVEYLRDVLSDIDKELFVVT 173
+ ++ + D + F +
Sbjct: 135 YHVDRVIKKLDEMCDLDSFFLF 156
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
0.318 0.137 0.412
Gapped
Lambda K H
0.267 0.0595 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,961,059
Number of extensions: 170849
Number of successful extensions: 383
Number of sequences better than 10.0: 1
Number of HSP's gapped: 376
Number of HSP's successfully gapped: 17
Length of query: 186
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 98
Effective length of database: 4,244,745
Effective search space: 415985010
Effective search space used: 415985010
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: 41 (21.7 bits)
S2: 54 (24.9 bits)