RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4746
(314 letters)
>3ukn_A Novel protein similar to vertebrate potassium VOL channel,
subfamily H (EAG-related)...; KCNH, ELK, ERG, CNBD,
CNBHD, C-linker, ION channel; 2.20A {Danio rerio} PDB:
3ukt_B 3ukv_B
Length = 212
Score = 54.3 bits (131), Expect = 6e-09
Identities = 8/48 (16%), Positives = 20/48 (41%)
Query: 38 IIATATKGQTEYRKLMDETLDYLRRLNVPPRIRERVKQWFSFTWEQQH 85
+ ++ Y + D++R +P + +R+ + F TW +
Sbjct: 3 MDQRMYSRRSLYHTRTKDLKDFIRVHRLPKALAQRMLECFQTTWSVNN 50
>2ptm_A Hyperpolarization-activated (IH) channel; ION channel, cyclic
nucleotide binding domain, C-linker, CAM SPHCN1, HCN;
HET: CMP; 1.93A {Strongylocentrotus purpuratus}
Length = 198
Score = 50.3 bits (121), Expect = 1e-07
Identities = 5/45 (11%), Positives = 21/45 (46%)
Query: 40 ATATKGQTEYRKLMDETLDYLRRLNVPPRIRERVKQWFSFTWEQQ 84
+YR+ + + +Y++ +P +R ++ ++ + + +
Sbjct: 1 GAMDSSSRQYREKLKQVEEYMQYRKLPSHLRNKILDYYEYRYRGK 45
>3bpz_A Potassium/sodium hyperpolarization-activated cyclic
nucleotide-gated channel 2; CNBD, C-linker, pacemaker,
HCN, HCN2, CAP, PKA, CAMP, ION channel; HET: CMP; 1.65A
{Mus musculus} PDB: 3ffq_A 1q3e_A* 1q43_A* 1q5o_A*
3u10_A* 2q0a_A* 3etq_A* 3u11_A* 3otf_A* 3u0z_A*
Length = 202
Score = 49.2 bits (118), Expect = 3e-07
Identities = 4/45 (8%), Positives = 20/45 (44%)
Query: 40 ATATKGQTEYRKLMDETLDYLRRLNVPPRIRERVKQWFSFTWEQQ 84
+ + +Y++ + Y+ +P R+++ ++ ++ +
Sbjct: 2 SAMDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQGK 46
>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 = 37.7 bits (87), Expect = 0.005
Identities = 30/180 (16%), Positives = 48/180 (26%), Gaps = 59/180 (32%)
Query: 176 DLLSLMPFDLLYFVFG-FECTFLRLPR--LIKIQTFWEFCNHFDSVLASPY--------- 223
D S P L + G E L +P E F+ +L P
Sbjct: 2 DAYSTRPLTLSH---GSLEHVLL-VPTASFFIASQLQE---QFNKILPEPTEGFAADDEP 54
Query: 224 --VVR-VARTLTYMIYLVHLNACAYYEISVREGLG-----------INSWVYD------- 262
V + L Y+ LV + ++ + L I++
Sbjct: 55 TTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDT 114
Query: 263 --GKGNAYIRCFYFATKTATSIGKNPRPTNEMEYVFMTVSWLL------GVFVFAVLIGQ 314
K I+ + A A RP ++ S L + A+ GQ
Sbjct: 115 TLVKTKELIKNYITARIMA------KRPFDKKS-----NSALFRAVGEGNAQLVAIFGGQ 163
>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 = 34.4 bits (78), Expect = 0.048
Identities = 26/210 (12%), Positives = 61/210 (29%), Gaps = 50/210 (23%)
Query: 6 EQHCLTSVNNWELSTCYQRWLTPFHYCSQIRDIIATATKGQTEYRKLMDETLDYLRRLNV 65
+ + VN + ++ I I E + ++ L R
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTI--SIPSI-------YLELKVKLEN-EYALHR--- 447
Query: 66 PPRIRER---VKQWFSFTWEQQHTLGYWYISWLCLVTLSYL-YNCFVIPLRVTFPYQTRS 121
I + K + S + Y+Y S++ ++ L+ + +
Sbjct: 448 --SIVDHYNIPKTFDSDDLIPPYLDQYFY---------SHIGHH-----LKNIEHPERMT 491
Query: 122 NLITWFVFDYVMDVIYILDLLLIKPRLIYLDDGFWIKDSKLTRIQ----YRRKLQYKNDL 177
F LD ++ ++ + + S L +Q Y+ + +
Sbjct: 492 LFRMVF-----------LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPK 540
Query: 178 LSLMPFDLLYFVFGFECTFLRLP--RLIKI 205
+ +L F+ E + L++I
Sbjct: 541 YERLVNAILDFLPKIEENLICSKYTDLLRI 570
Score = 27.1 bits (59), Expect = 8.7
Identities = 45/366 (12%), Positives = 88/366 (24%), Gaps = 136/366 (37%)
Query: 25 WLTPFHYCSQIRDIIA--------------TATKGQTEYRKLMDETLDYLRRLNVPPRIR 70
WL C+ ++ + + + + + LRRL ++
Sbjct: 186 WLN-LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL-----LK 239
Query: 71 ERVKQ---------WFSFTWEQQHTLGYWYISWLC--LVT-----------LSYLYNCFV 108
+ + + W + C L+T + + +
Sbjct: 240 SKPYENCLLVLLNVQNAKAWN--------AFNLSCKILLTTRFKQVTDFLSAATTTHISL 291
Query: 109 IPLRVTF-PYQTRSNLITWFVFDYVMDVIYILDL----LLIKPRLIYLDDGFW--IKDSK 161
+T P + +S L+ + DL L PR + + I+D
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCR-------PQDLPREVLTTNPRRLSI---IAESIRD-G 340
Query: 162 LTRIQYRRKLQY-------KNDLLSLMPFDL--LY---FVFGFECTFLRLPRLIKI---- 205
L + + ++ L L P + ++ VF P I
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF---------PPSAHIPTIL 391
Query: 206 -QTFW---------EFCNHFDSVLASPYVVRVARTLTYMIYLVHLNACA----------- 244
W N V + + T I ++L
Sbjct: 392 LSLIWFDVIKSDVMVVVNKLHKYSL---VEKQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 245 ---YYEISVR---EGLGINSWVYDGKGNAYIRCFYFA--TKTATSIGKNPRPTNEMEYVF 296
+Y I + L D Y + K + VF
Sbjct: 449 IVDHYNIPKTFDSDDLIPPYL--DQ----YF-YSHIGHHLKNIEHPER----MTLFRMVF 497
Query: 297 MTVSWL 302
+ +L
Sbjct: 498 LDFRFL 503
>3sya_A G protein-activated inward rectifier potassium CH; ION channel,
potassium channel, inward rectification, sodium PIP2
binding, G protein binding; HET: PIO; 2.98A {Mus
musculus} PDB: 3syo_A 3syc_A 3syp_A 3syq_A*
Length = 340
Score = 31.3 bits (70), Expect = 0.42
Identities = 16/116 (13%), Positives = 41/116 (35%), Gaps = 8/116 (6%)
Query: 206 QTFWEFCNHFDSVLASPYVVRVARTLTYMIYLVHLNACAYYEISVREGLGINSWVYDGKG 265
+T+ + F +++ + + + ++ I+ G +
Sbjct: 25 ETYRYLTDIFTTLVDLKWRFNLLIFVMVYTVTWLFFGMIWWLIAYIRGDMDHIEDPSWTP 84
Query: 266 -----NAYIRCFYFATKTATSIG---KNPRPTNEMEYVFMTVSWLLGVFVFAVLIG 313
N ++ F F+ +T T+IG + + + + +LG V A ++G
Sbjct: 85 CVTNLNGFVSAFLFSIETETTIGYGYRVITDKCPEGIILLLIQSVLGSIVNAFMVG 140
>3vou_A ION transport 2 domain protein, voltage-gated SOD channel;
4-helical bundle, ION channel, membrane, transport
protein; 3.20A {Bacillus weihenstephanensis}
Length = 148
Score = 28.8 bits (64), Expect = 1.3
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 265 GNAYIRCFYFATKTATSIG-KNPRPTNEMEYVFMTVSWLLGVFVFAVLIGQ 314
G + YF+ T T++G N P + VF + +G+ + I +
Sbjct: 50 GLRPLDALYFSVVTLTTVGDGNFSPQTDFGKVFTILYIFIGIGLVFGFIHK 100
>1p7b_A Integral membrane channel and cytosolic domains; transmembrane
helices, ION conduction, immunoglobulin fold, assembly;
3.65A {Burkholderia pseudomallei} SCOP: b.1.18.16
f.14.1.1 PDB: 2wll_B* 2wll_A*
Length = 333
Score = 29.4 bits (65), Expect = 1.4
Identities = 9/49 (18%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 266 NAYIRCFYFATKTATSIGKNPR-PTNEMEYVFMTVSWLLGVFVFAVLIG 313
++ F+F+ +T ++G P + T+ +G+ A+ G
Sbjct: 95 PGFVGAFFFSVETLATVGYGDMHPQTVYAHAIATLEIFVGMSGIALSTG 143
>2qks_A KIR3.1-prokaryotic KIR channel chimera; G-protein gated inward
rectifier, potassium channel selectivity filter, metal
transport; HET: BNG; 2.20A {Burkholderia xenovorans}
Length = 321
Score = 29.3 bits (65), Expect = 1.6
Identities = 15/122 (12%), Positives = 35/122 (28%), Gaps = 11/122 (9%)
Query: 193 ECTFLRLPRLIKIQTFWEFCNHFDSVLASPYVVRVARTLTYMIYLVHLNACAYYEISVRE 252
C + + + F +++ + + L A Y S
Sbjct: 14 RCNVQHGNLGSETSRYLS--DLFTTLVDLKWRWFFVSLAVLFLLLNTAFATLYMLGSAPI 71
Query: 253 GLGINSWVYDGKGNAYIRCFYFATKTATSIGKNPR-PTNEMEYVFMTVSWLLGVFVFAVL 311
+ + F+F+ +T ++G P + T+ +G+ A+
Sbjct: 72 A--------NQFPAGFGGAFFFSVETLATVGYGDMHPQTVYAHWIATLEIFVGMSSIALA 123
Query: 312 IG 313
G
Sbjct: 124 TG 125
>3ouf_A Potassium channel protein; ION channel, membrane, membrane protein;
1.55A {Bacillus cereus} PDB: 3t4z_A 3tcu_A 3t1c_A 3tet_A
3t4d_A 3t2m_A 3e86_A 3e83_A 3e89_A 3e8b_A 3e8f_A 3e8g_A
3e8h_A 3k0d_A 3k0g_A 3k06_A 3k08_A 3k04_A 3k03_A
Length = 97
Score = 26.7 bits (59), Expect = 3.7
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 265 GNAYIRCFYFATKTATSIG-KNPRPTNEMEYVFMTVSWLLGVFVFAVLIGQ 314
G I YF+ T T++G + P + +F + +G+ + I +
Sbjct: 30 GLRPIDALYFSVVTLTTVGYGDFSPQTDFGKIFTILYIFIGIGLVFGFIHK 80
>3exq_A Nudix family hydrolase; protein structure initiative II(PSI II),
NYSGXRC, 11180K, structural genomics; 2.00A
{Lactobacillus brevis atcc 367}
Length = 161
Score = 27.3 bits (61), Expect = 4.2
Identities = 7/50 (14%), Positives = 19/50 (38%), Gaps = 4/50 (8%)
Query: 254 LGINSWVYDGKGNAYIRCFYFATKTATSIGKNPRPTNEMEYVFMTVSWLL 303
G W D + + + Y A++ + + E + ++ ++ L
Sbjct: 74 CGTCEWFDDDRQHRKLGLLY----RASNFTGTLKASAEGQLSWLPITALT 119
>3ldc_A Calcium-gated potassium channel MTHK; transmembrane, ION channel,
open conformation, IO transport; 1.45A
{Methanothermobacter thermautotrophicusorganism_taxid}
PDB: 3lde_A 3r65_A 3ous_A 3ldd_A
Length = 82
Score = 26.2 bits (58), Expect = 4.3
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 265 GNAYIRCFYFATKTATSIG-KNPRPTNEMEYVFMTVSWLLGVFVFAVLIGQ 314
G ++ Y+ T ++G + P + F +LG+ FAV + +
Sbjct: 26 GESWTVSLYWTFVTIATVGYGDYSPHTPLGMYFTCTLIVLGIGTFAVAVER 76
>3spc_A Inward-rectifier K+ channel KIR2.2; PIP, membrane protein, lipid,
receptor, metal transport; HET: P8P; 2.45A {Gallus
gallus} PDB: 3jyc_A* 3spi_A* 3sph_A* 3spj_A 3spg_A*
Length = 343
Score = 27.8 bits (61), Expect = 5.3
Identities = 17/120 (14%), Positives = 42/120 (35%), Gaps = 9/120 (7%)
Query: 203 IKIQTFWEFCNHFDSVLASPYVVRVARTLTYMIYLVHLNACAYYEISVREGLGINSWVYD 262
+ + + F + + + + + L ++ I++ G N D
Sbjct: 24 MDDKPQRYIADMFTTCVDIRWRYMLLLFSLAFLVSWLLFGLIFWLIALIHGDLENPGGDD 83
Query: 263 GKG------NAYIRCFYFATKTATSIG---KNPRPTNEMEYVFMTVSWLLGVFVFAVLIG 313
N ++ F F+ +T T+IG + + + V ++G + + +IG
Sbjct: 84 TFKPCVLQVNGFVAAFLFSIETQTTIGYGFRCVTEECPLAVFMVVVQSIVGCIIDSFMIG 143
>2q67_A Potassium channel protein; inverted teepee, helix bundle, tetramer,
central cavity, ION metal transport, membrane protein;
2.30A {Bacillus cereus} PDB: 2q68_A 2q6a_A 2q69_A 2ahy_A
2ahz_A
Length = 114
Score = 26.4 bits (58), Expect = 5.6
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 265 GNAYIRCFYFATKTATSIG-KNPRPTNEMEYVFMTVSWLLGVFVFAVLIGQ 314
G I YF+ T T++G N P + +F + +G+ + I +
Sbjct: 47 GLRPIDALYFSVVTLTTVGAGNFSPQTDFGKIFTILYIFIGIGLVFGFIHK 97
>2i7g_A Monooxygenase, AGR_C_4197P; alpha-beta, TIM barrel, helix-bundle,
structural genomics, P protein structure initiative;
HET: MSE; 1.73A {Agrobacterium tumefaciens str}
Length = 376
Score = 27.4 bits (61), Expect = 6.6
Identities = 7/33 (21%), Positives = 11/33 (33%)
Query: 48 EYRKLMDETLDYLRRLNVPPRIRERVKQWFSFT 80
+Y L E LD L L + + +
Sbjct: 149 DYDVLFAEKLDLLLALREQEVVTWSGTKHPAIN 181
>4efi_A 3-oxoacyl-(acyl-carrier protein) synthase; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; 1.35A {Burkholderia xenovorans}
Length = 354
Score = 27.1 bits (61), Expect = 7.6
Identities = 12/67 (17%), Positives = 20/67 (29%), Gaps = 9/67 (13%)
Query: 248 ISVREGLGINSWVY--DGKGNAYIRCFYFATKTATSIGKNPRPTNEMEYVFMTVSWLLG- 304
+ G ++ DGKG + K + E +FM G
Sbjct: 182 LETSNGDAAAHFIIGADGKGARNLIVPSGGFKPYDAAADERMAGKSPECLFMD-----GG 236
Query: 305 -VFVFAV 310
+F F +
Sbjct: 237 EIFNFTL 243
>1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A
{Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1
PDB: 1sc5_A
Length = 239
Score = 26.8 bits (60), Expect = 7.8
Identities = 8/20 (40%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 57 LDYLRRLNVPPR-IRERVKQ 75
DYLR L+ R +RE+ ++
Sbjct: 81 YDYLRSLDFGSRQVREKERR 100
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
0.330 0.143 0.477
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,088,802
Number of extensions: 295278
Number of successful extensions: 869
Number of sequences better than 10.0: 1
Number of HSP's gapped: 857
Number of HSP's successfully gapped: 30
Length of query: 314
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 221
Effective length of database: 4,105,140
Effective search space: 907235940
Effective search space used: 907235940
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 (21.9 bits)
S2: 57 (25.6 bits)