RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11889
(123 letters)
>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 = 142 bits (360), Expect = 1e-41
Identities = 49/113 (43%), Positives = 63/113 (55%), Gaps = 5/113 (4%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61
++ F SIP WWA+V+MTTVGYGDMVP T G VG+LCA+AGVLTIALPVPVIV
Sbjct: 366 ADERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGSLCAIAGVLTIALPVPVIV 425
Query: 62 SNFSRFYSHAQARSKLPKKRRRVLPVEQPRPKRGESVNVINRRMTAIKNNPSM 114
SNF+ FY + + + PK S ++ R + +
Sbjct: 426 SNFNYFYHRETEGEEQAQYLQV-----TSSPKIPSSPDLKKSRSASTISKSDY 473
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 128 bits (322), Expect = 4e-37
Identities = 21/95 (22%), Positives = 38/95 (40%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61
F SIP +WWA+VT++T GYGD +P+++ G + ++G+ L ++
Sbjct: 152 RDIQPEKFGSIPQAMWWAVVTLSTTGYGDTIPQSFAGRVLAGAVMMSGIGIFGLWAGILA 211
Query: 62 SNFSRFYSHAQARSKLPKKRRRVLPVEQPRPKRGE 96
+ F + L + E
Sbjct: 212 TGFYQEVRRGDFVRNWQLVAAVPLFQKLGPAVLVE 246
>3eff_K Voltage-gated potassium channel; FULL length KCSA, bulge helix,
cell membrane, ION transport, ionic channel, membrane,
transmembrane; 3.80A {Streptomyces lividans}
Length = 139
Score = 120 bits (302), Expect = 2e-36
Identities = 23/104 (22%), Positives = 40/104 (38%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61
P + P LWW++ T TTVGYGD+ P T G V + +AG+ + L +
Sbjct: 31 RGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALA 90
Query: 62 SNFSRFYSHAQARSKLPKKRRRVLPVEQPRPKRGESVNVINRRM 105
+ F + ++ + E + + R +
Sbjct: 91 TWFVGREQERRGHFVRHSEKAAEEAYTRTTRALHERFDRLERML 134
>3pjs_K KCSA, voltage-gated potassium channel; ION channel, conducts K+
IONS, cell membrane, transport PROT; 3.80A {Streptomyces
lividans} PDB: 1f6g_A
Length = 166
Score = 120 bits (302), Expect = 5e-36
Identities = 24/108 (22%), Positives = 42/108 (38%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61
P + P LWW++ T TTVGYGD+ P T G V + +AG+ + L +
Sbjct: 58 RGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALA 117
Query: 62 SNFSRFYSHAQARSKLPKKRRRVLPVEQPRPKRGESVNVINRRMTAIK 109
+ F Q + ++ + E + + R + +
Sbjct: 118 TWFVGQEQQQQQQFVRHSEKAAEEAYTRTTRALHERFDRLERMLDDNR 165
>1orq_C Potassium channel; voltage-dependent, KVAP, FAB complex, MEM
protein; 3.20A {Aeropyrum pernix} SCOP: f.14.1.1 PDB:
2a0l_A
Length = 223
Score = 119 bits (300), Expect = 5e-35
Identities = 24/67 (35%), Positives = 38/67 (56%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61
+ +P + S+ LWWA+VT TTVGYGD+VP T +G +G L G+ + L + +
Sbjct: 156 YPDPNSSIKSVFDALWWAVVTATTVGYGDVVPATPIGKVIGIAVMLTGISALTLLIGTVS 215
Query: 62 SNFSRFY 68
+ F +
Sbjct: 216 NMFQKIL 222
>2a9h_A Voltage-gated potassium channel; potassium channel, KCSA,
structure, membrane protein, metal transport; HET: PCA;
NMR {Streptomyces lividans} SCOP: f.14.1.1
Length = 155
Score = 116 bits (291), Expect = 1e-34
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 2/82 (2%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61
P S P LWW++ T TTVGYGD+ P T G V + +AG+ + L +
Sbjct: 75 RGAPGAALISYPDALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAGITSYGLVFAAVA 134
Query: 62 SNFSRFYSHAQARSKLPKKRRR 83
+ F + R + +
Sbjct: 135 TWFVGRE--QERRGHFVRHSEK 154
>2ih3_C Voltage-gated potassium channel; ION channel D-amino acid
semi-synthetic, membrane protein; HET: 1EM; 1.72A
{Streptomyces lividans} PDB: 2ih1_C* 1r3j_C* 1k4d_C*
1r3i_C* 1k4c_C* 1r3k_C* 1r3l_C* 2bob_C* 2boc_C* 2hvj_C*
2hvk_C* 2itc_C 2itd_C 3gb7_C* 3iga_C* 1jvm_A 1s5h_C*
3ifx_A* 1j95_A 2jk5_C* ...
Length = 122
Score = 112 bits (282), Expect = 1e-33
Identities = 21/71 (29%), Positives = 30/71 (42%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61
P + P LWWA T TTV YGD+ P T G V + +AG+ + L +
Sbjct: 52 RGAPGAQLITYPRALWWACETATTVAYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALA 111
Query: 62 SNFSRFYSHAQ 72
+ F +
Sbjct: 112 TWFVGREQERR 122
>2k1e_A Water soluble analogue of potassium channel, KCSA; homotetramer,
ION transport, ionic channel, membrane, transmembrane,
transport; NMR {Escherichia coli} PDB: 2kb1_A
Length = 103
Score = 109 bits (275), Expect = 8e-33
Identities = 23/72 (31%), Positives = 31/72 (43%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61
P S P +WW++ T TTVGYGD P T G V AG+ AL +
Sbjct: 31 RGAPGAALISYPDAIWWSVETATTVGYGDRYPVTEEGRKVAEQVMKAGIEVFALVTAALA 90
Query: 62 SNFSRFYSHAQA 73
++F R +
Sbjct: 91 TDFVRREEERRG 102
>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 = 77.1 bits (189), Expect = 4e-18
Identities = 18/90 (20%), Positives = 32/90 (35%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61
++++ T+ TVGYGDM P+T + L G+ IAL ++
Sbjct: 87 APIANQSPPGFVGAFFFSVETLATVGYGDMHPQTVYAHAIATLEIFVGMSGIALSTGLVF 146
Query: 62 SNFSRFYSHAQARSKLPKKRRRVLPVEQPR 91
+ F+R + + R
Sbjct: 147 ARFARPRAKIMFARHAIVRPFNGRMTLMVR 176
>1xl4_A Inward rectifier potassium channel; integral membrane protein, ION
channel, inwardly rectifying channel, metal transport;
2.60A {Magnetospirillum magnetotacticum} SCOP: b.1.18.16
f.14.1.1 PDB: 1xl6_A* 2wlh_A 2wli_B 2wlj_A* 2wlk_A*
2wlm_A 2wlo_A 2wln_A 3zrs_A 2wli_A 2x6c_A* 2x6b_A*
2x6a_A*
Length = 301
Score = 73.9 bits (181), Expect = 4e-17
Identities = 20/90 (22%), Positives = 38/90 (42%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIV 61
S ++++ TM T+GYG ++P + + L AL G+L +A+ +I
Sbjct: 73 DVIENARPGSFTDAFFFSVQTMATIGYGKLIPIGPLANTLVTLEALCGMLGLAVAASLIY 132
Query: 62 SNFSRFYSHAQARSKLPKKRRRVLPVEQPR 91
+ F+R + S++ P R
Sbjct: 133 ARFTRPTAGVLFSSRMVISDFEGKPTLMMR 162
>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 = 71.7 bits (175), Expect = 4e-16
Identities = 17/74 (22%), Positives = 29/74 (39%)
Query: 1 MHANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVI 60
++++ T+ TVGYGDM P+T ++ L G+ +IAL
Sbjct: 68 SAPIANQFPAGFGGAFFFSVETLATVGYGDMHPQTVYAHWIATLEIFVGMSSIALATGCA 127
Query: 61 VSNFSRFYSHAQAR 74
S+ A+
Sbjct: 128 FIKMSQPKKRAETL 141
>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 = 64.3 bits (157), Expect = 3e-15
Identities = 19/54 (35%), Positives = 29/54 (53%)
Query: 11 SIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNF 64
S + L+W VT+ TVGYGD P T +GM+ + G+ T A+ V ++
Sbjct: 28 SWTVSLYWTFVTIATVGYGDYSPHTPLGMYFTCTLIVLGIGTFAVAVERLLEFL 81
>1lnq_A MTHK channels, potassium channel related protein; rossman fold,
helix bundle, membrane protein; 3.30A
{Methanothermobacter thermautotrophicusorganism_taxid}
SCOP: c.2.1.9 d.286.1.1 f.14.1.1 PDB: 3rbz_A
Length = 336
Score = 62.1 bits (151), Expect = 8e-13
Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 1/71 (1%)
Query: 11 SIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNF-SRFYS 69
S + L+W VT+ TVGYGD P T +GM+ + G+ T A+ V ++ +R
Sbjct: 45 SWTVSLYWTFVTIATVGYGDYSPSTPLGMYFTVTLIVLGIGTFAVAVERLLEFLINREQM 104
Query: 70 HAQARSKLPKK 80
+ K
Sbjct: 105 KLMGLIDVAKS 115
>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 = 57.6 bits (139), Expect = 6e-12
Identities = 16/75 (21%), Positives = 31/75 (41%)
Query: 11 SIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSH 70
L++++VT+TTVG G+ P+T G L G+ + + + N
Sbjct: 52 RPLDALYFSVVTLTTVGDGNFSPQTDFGKVFTILYIFIGIGLVFGFIHKLAVNVQLPSIL 111
Query: 71 AQARSKLPKKRRRVL 85
+ + + R V+
Sbjct: 112 SNRKKETDAYRLEVM 126
>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 = 54.8 bits (132), Expect = 3e-11
Identities = 16/54 (29%), Positives = 26/54 (48%)
Query: 11 SIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNF 64
L++++VT+TTVGYGD P+T G L G+ + + + N
Sbjct: 32 RPIDALYFSVVTLTTVGYGDFSPQTDFGKIFTILYIFIGIGLVFGFIHKLAVNV 85
>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 = 55.3 bits (133), Expect = 3e-11
Identities = 14/54 (25%), Positives = 25/54 (46%)
Query: 11 SIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNF 64
L++++VT+TTVG G+ P+T G L G+ + + + N
Sbjct: 49 RPIDALYFSVVTLTTVGAGNFSPQTDFGKIFTILYIFIGIGLVFGFIHKLAVNV 102
>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 = 45.8 bits (108), Expect = 6e-07
Identities = 25/109 (22%), Positives = 36/109 (33%), Gaps = 42/109 (38%)
Query: 19 ALVTMTTVGYGDM-----VPKTYVGMFVG-------ALCALAGVLTI--ALPVPVIVSNF 64
AL M + D+ +P F G AL +LA V++I +
Sbjct: 1735 ALTLMEKAAFEDLKSKGLIPADAT--FAGHSLGEYAALASLADVMSIESLV--------- 1783
Query: 65 SRFYSHAQARSKLPKKRRRVLPVEQPRPKRGESVNVINRRMTAIKNNPS 113
++ R + V PR + G S N M AI NP
Sbjct: 1784 -----------EVVFYRGMTMQVAVPRDELGRS----NYGMIAI--NPG 1815
>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 = 43.2 bits (101), Expect = 4e-06
Identities = 15/74 (20%), Positives = 29/74 (39%), Gaps = 2/74 (2%)
Query: 2 HANPENDFNSIPLGLWWALVTMTTVGYGDMVP--KTYVGMFVGALCALAGVLTIALPVPV 59
+ N +++ T TT+GYG V K G+ + + ++ G + A V
Sbjct: 82 WTPCVTNLNGFVSAFLFSIETETTIGYGYRVITDKCPEGIILLLIQSVLGSIVNAFMVGC 141
Query: 60 IVSNFSRFYSHAQA 73
+ S+ A+
Sbjct: 142 MFVKISQPKKRAET 155
>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 = 41.3 bits (96), Expect = 2e-05
Identities = 13/67 (19%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 9 FNSIPLGLWWALVTMTTVGYG--DMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSR 66
N +++ T TT+GYG + + + +F+ + ++ G + + + I++ +R
Sbjct: 92 VNGFVAAFLFSIETQTTIGYGFRCVTEECPLAVFMVVVQSIVGCIIDSFMIGAIMAKMAR 151
Query: 67 FYSHAQA 73
AQ
Sbjct: 152 PKKRAQT 158
>3ukm_A Potassium channel subfamily K member 1; membrane protein,
eukaryotic, two-pore DO potassium channel, K2P channel,
membrane; HET: UND; 3.40A {Homo sapiens}
Length = 280
Score = 39.0 bits (90), Expect = 1e-04
Identities = 9/60 (15%), Positives = 23/60 (38%)
Query: 15 GLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSHAQAR 74
++ ++++T+G GD VP L + + L + ++ F + +
Sbjct: 205 SFYFCFISLSTIGLGDYVPGEGYNQKFRELYKIGITCYLLLGLIAMLVVLETFCELHELK 264
Score = 36.0 bits (82), Expect = 0.001
Identities = 13/74 (17%), Positives = 27/74 (36%)
Query: 1 MHANPENDFNSIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVI 60
+ N L++A ++T GYG VP + G + ++ G+ L + +
Sbjct: 83 LSQASGNWNWDFTSALFFASTVLSTTGYGHTVPLSDGGKAFCIIYSVIGIPFTLLFLTAV 142
Query: 61 VSNFSRFYSHAQAR 74
V + +
Sbjct: 143 VQRITVHVTRRPVL 156
>3um7_A Potassium channel subfamily K member 4; potassium ION channel,
metal transport; 3.31A {Homo sapiens}
Length = 309
Score = 35.2 bits (80), Expect = 0.003
Identities = 11/66 (16%), Positives = 25/66 (37%)
Query: 11 SIPLGLWWALVTMTTVGYGDMVPKTYVGMFVGALCALAGVLTIALPVPVIVSNFSRFYSH 70
+ +++ +TT+GYG++ +T G AL G+ + + + H
Sbjct: 115 DLGSAFFFSGTIITTIGYGNVALRTDAGRLFCIFYALVGIPLFGILLAGVGDRLGSSLRH 174
Query: 71 AQARSK 76
+
Sbjct: 175 GIGHIE 180
Score = 32.9 bits (74), Expect = 0.018
Identities = 14/75 (18%), Positives = 26/75 (34%), Gaps = 6/75 (8%)
Query: 15 GLWWALVTMTTVGYGDMVPKTY------VGMFVGALCALAGVLTIALPVPVIVSNFSRFY 68
+++ +VT+TTVG+GD V + L G+ A + I +
Sbjct: 228 AIYFVIVTLTTVGFGDYVAGADPRQDSPAYQPLVWFWILLGLAYFASVLTTIGNWLRVVS 287
Query: 69 SHAQARSKLPKKRRR 83
+A +
Sbjct: 288 RRTRAEMGGLTAQSN 302
>2fki_A Protein YJBR; NESG, GFT-alpha-beta, structural genomics, PSI,
protein structure initiative, northeast structural
genomics consortium; NMR {Escherichia coli} SCOP:
d.198.3.1
Length = 126
Score = 26.4 bits (58), Expect = 1.8
Identities = 7/17 (41%), Positives = 14/17 (82%)
Query: 69 SHAQARSKLPKKRRRVL 85
S+ QA + LP+++R++L
Sbjct: 99 SYQQAVNLLPEEKRKLL 115
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
0.321 0.135 0.413
Gapped
Lambda K H
0.267 0.0581 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,887,390
Number of extensions: 103364
Number of successful extensions: 198
Number of sequences better than 10.0: 1
Number of HSP's gapped: 198
Number of HSP's successfully gapped: 26
Length of query: 123
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 41
Effective length of database: 4,412,271
Effective search space: 180903111
Effective search space used: 180903111
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: 51 (23.8 bits)