RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15170
(233 letters)
>3drz_A BTB/POZ domain-containing protein KCTD5; potassium channel domain
T1, pentamer, unkno function; 1.90A {Homo sapiens}
Length = 107
Score = 113 bits (286), Expect = 9e-33
Identities = 35/95 (36%), Positives = 55/95 (57%), Gaps = 2/95 (2%)
Query: 6 IVELNVGGVFYTTSLSTITRDPSSHIARLFS-NPENSPQKDAKGKYFIDRDGVLFRYVLD 64
V LNVGG ++ T+ T+ RDP S + RL +P+ KD G Y IDRD F VL+
Sbjct: 7 WVRLNVGGTYFLTTRQTLCRDPKSFLYRLCQADPDLDSDKDETGAYLIDRDPTYFGPVLN 66
Query: 65 YLRNQMLILPESFREKERLRQEAIYYGLPAMIDSI 99
YLR+ L++ + E+ + +EA +Y + ++I +
Sbjct: 67 YLRHGKLVINKDLAEEG-VLEEAEFYNITSLIKLV 100
>3drx_A BTB/POZ domain-containing protein KCTD5; golgi, grAsp55, potassium
channel domain T1, pentameric assembly, HOST-virus
interaction, nucleus; 3.11A {Homo sapiens} PDB: 3dry_A
Length = 202
Score = 112 bits (282), Expect = 3e-31
Identities = 35/99 (35%), Positives = 55/99 (55%), Gaps = 2/99 (2%)
Query: 2 EYPAIVELNVGGVFYTTSLSTITRDPSSHIARLFS-NPENSPQKDAKGKYFIDRDGVLFR 60
V LNVGG ++ T+ T+ RDP S + RL +P+ KD G Y IDRD F
Sbjct: 9 SVSKWVRLNVGGTYFLTTRQTLCRDPKSFLYRLCQADPDLDSDKDETGAYLIDRDPTYFG 68
Query: 61 YVLDYLRNQMLILPESFREKERLRQEAIYYGLPAMIDSI 99
VL+YLR+ L++ + E+ + +EA +Y + ++I +
Sbjct: 69 PVLNYLRHGKLVINKDLAEEG-VLEEAEFYNITSLIKLV 106
>2nz0_B Potassium voltage-gated channel subfamily D membe; KV4.3, kchip1,
membrane protein; 3.20A {Homo sapiens} PDB: 2i2r_A
Length = 140
Score = 91.4 bits (227), Expect = 1e-23
Identities = 24/95 (25%), Positives = 38/95 (40%), Gaps = 4/95 (4%)
Query: 2 EYPAIVELNVGGVFYTTSLSTITRDPSSHIARLFSNPENSPQKDAKGKYFIDRDGVLFRY 61
++ LNV G + T +T+ R P + + + +YF DRD +FR
Sbjct: 32 RQDELIVLNVSGRRFQTWRTTLERYPDTLLGSTEKEFFF---NEDTKEYFFDRDPEVFRC 88
Query: 62 VLDYLRNQMLILPESFREKERLRQEAIYYGLPAMI 96
VL++ R L P E +YG+ I
Sbjct: 89 VLNFYRTGKLHYPRYE-CISAYDDELAFYGILPEI 122
>1nn7_A Potassium channel KV4.2; teteramerization domain, voltage gated
potassium channel SHAL, membrane protein; 2.10A {Rattus
norvegicus} SCOP: d.42.1.2
Length = 105
Score = 89.7 bits (223), Expect = 2e-23
Identities = 23/91 (25%), Positives = 39/91 (42%), Gaps = 4/91 (4%)
Query: 6 IVELNVGGVFYTTSLSTITRDPSSHIARLFSNPENSPQKDAKGKYFIDRDGVLFRYVLDY 65
++ LNV G + T T+ R P + + + +YF DRD +FR++L++
Sbjct: 1 LIVLNVSGTRFQTWQDTLERYPDTLLGSSERDFFY---HPETQQYFFDRDPDIFRHILNF 57
Query: 66 LRNQMLILPESFREKERLRQEAIYYGLPAMI 96
R L P +E ++GL I
Sbjct: 58 YRTGKLHYPRHECI-SAYDEELAFFGLIPEI 87
>3kvt_A Potassium channel protein SHAW; tetramerization domain, molecular
recogni zinc-binding; 2.00A {Aplysia californica} SCOP:
d.42.1.2
Length = 115
Score = 87.9 bits (218), Expect = 1e-22
Identities = 23/96 (23%), Positives = 44/96 (45%), Gaps = 3/96 (3%)
Query: 1 MEYPAIVELNVGGVFYTTSLSTITRDPSSHIARLFSNPENSPQKDAKGKYFIDRDGVLFR 60
M+ V +NVGG+ + T +T+ + P++ ++RL +YF DR +F
Sbjct: 1 MDAENRVIINVGGIRHETYKATLKKIPATRLSRLTE--GMLNYDPVLNEYFFDRHPGVFA 58
Query: 61 YVLDYLRNQMLILPESFREKERLRQEAIYYGLPAMI 96
+++Y R+ L P +E ++GL +
Sbjct: 59 QIINYYRSGKLHYPTDVCG-PLFEEELEFWGLDSNQ 93
>1s1g_A Potassium voltage-gated channel subfamily D membe; K+ channels,
tetramerization domain, T1 domain, transport PR; 2.60A
{Homo sapiens} SCOP: d.42.1.2
Length = 124
Score = 87.1 bits (216), Expect = 3e-22
Identities = 24/91 (26%), Positives = 38/91 (41%), Gaps = 4/91 (4%)
Query: 6 IVELNVGGVFYTTSLSTITRDPSSHIARLFSNPENSPQKDAKGKYFIDRDGVLFRYVLDY 65
++ LNV G + T +T+ R P + + + +YF DRD +FR VL++
Sbjct: 14 LIVLNVSGRRFQTWRTTLERYPDTLLGSTEKEFF---FNEDTKEYFFDRDPEVFRCVLNF 70
Query: 66 LRNQMLILPESFREKERLRQEAIYYGLPAMI 96
R L P E +YG+ I
Sbjct: 71 YRTGKLHYPRYE-CISAYDDELAFYGILPEI 100
>1t1d_A Protein (potassium channel KV1.1); potassium channels,
tetramerization domain, aplysia KV1.1, proton
transport, membrane protein; 1.51A {Aplysia
californica} SCOP: d.42.1.2 PDB: 1eod_A 1eof_A 1eoe_A
1a68_A 1qdv_A 1exb_E* 1qdw_A 1dsx_A
Length = 100
Score = 80.6 bits (199), Expect = 5e-20
Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 4/89 (4%)
Query: 6 IVELNVGGVFYTTSLSTITRDPSSHIARLFSNPENSPQKDAKGKYFIDRDGVLFRYVLDY 65
V +NV G+ + T L T+ + P + + N + +YF DR+ F +L +
Sbjct: 2 RVVINVSGLRFETQLKTLNQFPDTLLGNPQK--RNRYYDPLRNEYFFDRNRPSFDAILYF 59
Query: 66 LRNQ-MLILPESFREKERLRQEAIYYGLP 93
++ L P + + +E +Y L
Sbjct: 60 YQSGGRLRRPVNVPL-DVFSEEIKFYELG 87
>2r9r_B Paddle chimera voltage gated potassium channel KV; voltage sensor,
voltage dependent, ION CH shaker, membrane protein,
eukaryotic; HET: NAP PGW; 2.40A {Rattus norvegicus} PDB:
3lnm_B* 3lut_B* 2a79_B*
Length = 514
Score = 48.5 bits (115), Expect = 6e-07
Identities = 16/70 (22%), Positives = 29/70 (41%), Gaps = 3/70 (4%)
Query: 7 VELNVGGVFYTTSLSTITRDPSSHIARLFSNPENSPQKDAKGKYFIDRDGVLFRYVLDYL 66
V +N+ G+ + T L T+ + P + + + +YF DR+ F +L Y
Sbjct: 54 VVINISGLRFETQLKTLAQFPETLLGDPKKR--MRYFDPLRNEYFFDRNRPSFDAILYYY 111
Query: 67 R-NQMLILPE 75
+ L P
Sbjct: 112 QSGGRLRRPV 121
>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 = 41.4 bits (96), Expect = 2e-04
Identities = 43/293 (14%), Positives = 79/293 (26%), Gaps = 96/293 (32%)
Query: 6 IVELNVGGV------FYTTSLSTITRDPS-------SHIARLFSNPENSPQKDAKGKYFI 52
+V+ V V F + + T R PS RL+++ + KY +
Sbjct: 78 MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA------KYNV 131
Query: 53 DR-DGVL-FRYVLDYLRNQ-------M-------LILPESFREKERLRQ--EAIYY---- 90
R L R L LR + + L + + + I++
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVAL-DVCLSYKVQCKMDFKIFWLNLK 190
Query: 91 ------GLPAMIDSIFH---SDDSKRGAGYITIGYRGSFAFGRDG--------------L 127
+ M+ + + + + R I R L
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250
Query: 128 ADVKFRKIT-------RILVCGR---VTLCRDVFGETLNESRDPDHGLTDRYTARFFLKH 177
+V+ K +IL+ R VT T LT LK
Sbjct: 251 LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK- 309
Query: 178 SSIEQAFDMLQEQGFHLVGSCGSGTAGSTAPSDLKPGVDAEE-----SRWNHY 225
++ L + +T P + + AE + W+++
Sbjct: 310 -YLDCRPQDLPRE------------VLTTNP--RRLSIIAESIRDGLATWDNW 347
Score = 32.5 bits (73), Expect = 0.11
Identities = 28/164 (17%), Positives = 46/164 (28%), Gaps = 43/164 (26%)
Query: 51 FI-DRDGVLFRYVLDYLRNQMLILPESFREKERLRQEAIYYGLPAMIDSIFHSDDSKRGA 109
F+ + D + V D ++ ++E ID I S D+ G
Sbjct: 29 FVDNFD---CKDVQDMPKS-------ILSKEE--------------IDHIIMSKDAVSGT 64
Query: 110 GYITI-----GYRGSFAFGRDGLA-DVKFRKITRILVCGRVTLCRDVFGETL--NESRDP 161
+ F + L + KF L+ T R T E RD
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLRINYKF------LMSPIKTEQRQPSMMTRMYIEQRDR 118
Query: 162 DHGLTDRYTARFFLKHSSIEQAFDMLQE----QGFHLVGSCGSG 201
+ + + + L E + + G GSG
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG 162
Score = 27.1 bits (59), Expect = 6.5
Identities = 12/50 (24%), Positives = 14/50 (28%), Gaps = 8/50 (16%)
Query: 49 KYFIDRDGVLFRYVLDYLRNQMLILPESFREKE-RLRQ-------EAIYY 90
Y D D R V L I K L + EAI+
Sbjct: 532 PYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFE 581
>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 = 34.3 bits (78), Expect = 0.034
Identities = 38/229 (16%), Positives = 60/229 (26%), Gaps = 98/229 (42%)
Query: 9 LNVGGVFYTTSLSTITRD----PSS---HIARLFSNPENSPQKDAKGKYFIDRDGV---- 57
L++ + + + P+ I+ L N + + V
Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQVEIS-LV----NGAKN------LV----VSGPP 383
Query: 58 --LFRYVLDYLR--------NQMLILPESFREKERLRQEAIYYG-LPAMIDSIFHS---- 102
L+ L LR +Q I P F E R+ LP + S FHS
Sbjct: 384 QSLYGLNL-TLRKAKAPSGLDQSRI-P--FSE----RKLKFSNRFLP--VASPFHSHLLV 433
Query: 103 ---DDSKRGAGYITIGYRGS------FAF--GRD----------GLADVKFRK------- 134
D + + + + G D + D R
Sbjct: 434 PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETT 493
Query: 135 ----ITRILVCGR------VTL---------CRDVFGETLNESRDPDHG 164
T IL G L R + TL+ + D D+G
Sbjct: 494 TQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYG 542
Score = 30.8 bits (69), Expect = 0.48
Identities = 51/281 (18%), Positives = 78/281 (27%), Gaps = 111/281 (39%)
Query: 3 YPAIVELNVGGVFYT-TSLSTITRDPSSHIARLF------SNPENSPQKDAKGKYF---- 51
Y +V + T + L T D + NP N+P KD Y
Sbjct: 180 YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD----YLLSIP 235
Query: 52 -----IDRDGV--LFRYVLDYLRNQMLILPESFREKER---LRQEAIYYGL-PAMIDSI- 99
I GV L YV+ + P R + + + + A DS
Sbjct: 236 ISCPLI---GVIQLAHYVV--TAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWE 290
Query: 100 -FHSDDSKRGAGYIT----IGYRGSFAFGRDGLAD-------------------VK---- 131
F K IT IG R A+ L +
Sbjct: 291 SFFVSVRK----AITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQ 346
Query: 132 ---FRKITRI-------------LVCGR----VT--------LC---RDVFGET-LNESR 159
+ + LV G V+ L R + L++SR
Sbjct: 347 EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSR 406
Query: 160 DPDHGLTDR---YTARF------FLKHSSI-EQAFDMLQEQ 190
P ++R ++ RF F HS + A D++ +
Sbjct: 407 IP---FSERKLKFSNRFLPVASPF--HSHLLVPASDLINKD 442
Score = 27.7 bits (61), Expect = 4.5
Identities = 15/65 (23%), Positives = 21/65 (32%), Gaps = 22/65 (33%)
Query: 167 DRYTAR-FFLKHSSIEQAFDM----------LQEQGFHLVGSCGSGTAGSTAPSDLKPGV 215
D Y+ R L H S+E + LQEQ F P++
Sbjct: 2 DAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQ-F---------NKILPEPTE-GFAA 50
Query: 216 DAEES 220
D E +
Sbjct: 51 DDEPT 55
>1zjr_A TRNA (guanosine-2'-O-)-methyltransferase; methylase, RNA modifying
enzyme, topological knot; 1.85A {Aquifex aeolicus}
Length = 211
Score = 31.0 bits (71), Expect = 0.21
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 176 KHSSIEQAFDMLQEQGFHLVGSCGSGTA 203
K + Q + +GF +V + S +
Sbjct: 82 KVDNPVQKLLEFKNRGFQIVATWLSKES 109
>1v2x_A TRNA (GM18) methyltransferase; DEEP trefoil knot, riken structural
genomics/proteomics INIT RSGI, structural genomics; HET:
SAM; 1.50A {Thermus thermophilus} SCOP: c.116.1.1
Length = 194
Score = 29.4 bits (67), Expect = 0.67
Identities = 8/30 (26%), Positives = 14/30 (46%)
Query: 174 FLKHSSIEQAFDMLQEQGFHLVGSCGSGTA 203
H + +AF L+E+GF + + A
Sbjct: 76 LRVHPDLHEAFRFLKERGFTVYATALREDA 105
>3l8h_A Putative haloacid dehalogenase-like hydrolase; HAD superfamily,
GMHB, D-glycero-D-manno-heptose-1, 7-bispho
phosphatase; HET: FX1; 1.68A {Bordetella
bronchiseptica}
Length = 179
Score = 28.3 bits (64), Expect = 1.4
Identities = 6/28 (21%), Positives = 15/28 (53%), Gaps = 5/28 (17%)
Query: 51 FIDRDGVLFRYVLDYLRNQMLILPESFR 78
+DRDGV+ + ++++ P+ +
Sbjct: 5 ILDRDGVVNQDSDAFVKS-----PDEWI 27
>3v8e_A Nicotinamidase; hydrolase; HET: JJJ; 2.71A {Saccharomyces
cerevisiae} PDB: 2h0r_A
Length = 216
Score = 28.3 bits (63), Expect = 2.0
Identities = 10/89 (11%), Positives = 26/89 (29%), Gaps = 13/89 (14%)
Query: 115 GYRGSFAFGRDGLADV-KFRKITRILVCGRVTLCRDVFGETLNESRD-PDHG-----LTD 167
+ + F + + + + + G + + + + G L D
Sbjct: 133 AFHDIWNFHKTDMNKYLEKHHTDEVYIVG---VALEY--XVKATAISAAELGYKTTVLLD 187
Query: 168 RYTARFFLKHSSIEQAFDMLQEQGFHLVG 196
YT I + + L+ ++V
Sbjct: 188 -YTRPISDDPEVINKVKEELKAHNINVVD 215
>2ha8_A TAR (HIV-1) RNA loop binding protein; methyltransferase, structural
genomics, structural genomics consortium, SGC, RNA
binding protein; HET: SAH; 1.60A {Homo sapiens}
Length = 184
Score = 28.0 bits (63), Expect = 2.2
Identities = 3/28 (10%), Positives = 11/28 (39%)
Query: 176 KHSSIEQAFDMLQEQGFHLVGSCGSGTA 203
K + + +G+ ++G + +
Sbjct: 85 KPPQLIDYLQQKKTEGYTIIGVEQTAKS 112
>1j3g_A AMPD protein, AMPD; mixed alpha-beta, hydrolase; NMR {Citrobacter
freundii} SCOP: d.118.1.1 PDB: 2y28_A 2y2b_A* 2y2c_A
2y2d_A 2y2e_A
Length = 187
Score = 27.7 bits (62), Expect = 2.4
Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 13/59 (22%)
Query: 13 GVFYTTSLSTITRDPSSHIARLFSNPENSPQKDAKGK----YFIDRDGVLFRYVLDYLR 67
G + +L T T DP++H A + I RDG + +YV R
Sbjct: 44 GGPWIDALFTGTIDPNAHPYFA---------GIAHLRVSAHCLIRRDGEIVQYVPFDKR 93
>3jzy_A Intersectin 2; C2 domain, structural genomics consortium (SGC),
endocytosis; 1.56A {Homo sapiens} PDB: 3qbv_B* 1ki1_B
Length = 510
Score = 26.5 bits (58), Expect = 8.1
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 67 RNQMLILPESFREKERLRQEAIY 89
R + ++ + ER RQ I+
Sbjct: 11 RENLYFQGDTMQPIERKRQGYIH 33
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
0.322 0.140 0.420
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,784,068
Number of extensions: 230359
Number of successful extensions: 616
Number of sequences better than 10.0: 1
Number of HSP's gapped: 602
Number of HSP's successfully gapped: 33
Length of query: 233
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 143
Effective length of database: 4,188,903
Effective search space: 599013129
Effective search space used: 599013129
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (25.9 bits)