RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16082
(252 letters)
>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 = 35.7 bits (83), Expect = 0.007
Identities = 20/127 (15%), Positives = 42/127 (33%), Gaps = 17/127 (13%)
Query: 120 HYVKSRAFMLDIISLLPLDLLYFKIGVNPMLRFPRFLKVYRVYDYY-YIVESRTVYPNLW 178
YVK + +I +L+P LL G L R +++ R I +
Sbjct: 68 GYVKK--TLYEIPALVPAGLLALIEGHLAGLGLFRLVRLLRFLRILLIISRGSKFLSAIA 125
Query: 179 RVVNLVHILLIFAHWFGCFY---YLLSQAEGFYGDWVYPYRVGEFSTLTRKYLGSIYWST 235
+ + +F + + E + ++ +++W+
Sbjct: 126 DAADKIRFYHLFGAVMLTVLYGAFAIYIVEYPDPN-------SSIKSVFD----ALWWAV 174
Query: 236 LTLTTIG 242
+T TT+G
Sbjct: 175 VTATTVG 181
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 36.0 bits (83), Expect = 0.009
Identities = 18/199 (9%), Positives = 56/199 (28%), Gaps = 32/199 (16%)
Query: 46 YFYWLLIITCCVLYNLWTLIVRQSFPELQENGAKFWFFCDYTTDTFIVLDILVQFRTGYL 105
+ L + L + + P++ +L +
Sbjct: 9 IYAPLNAV--LAAPGLLAVAA-LTIPDMSGRSRLALAALLAVIWGAYLLQLAATL----- 60
Query: 106 EQGLMVYNSMKLAGHYVKSRAFMLDIISLLPLDLLYFKIGVNPMLRFPRFLKVYRVYDYY 165
+ ++ +D++++L L F + +P + + +
Sbjct: 61 -------LKRRAGVVRDRTPKIAIDVLAVLVP-LAAFLLDGSPDWSLYCAVWLLKPLRDS 112
Query: 166 YIVES--RTVYPNLWRVVNLVHILLIFAHWFGCFYYLLSQAEGFYGDWVYPYRVGEFSTL 223
R + ++ + + + Y+ E +F ++
Sbjct: 113 TFFPVLGRVLANEARNLIGVTTLFGVVLFAVALAAYV---IERDIQP-------EKFGSI 162
Query: 224 TRKYLGSIYWSTLTLTTIG 242
+ +++W+ +TL+T G
Sbjct: 163 PQ----AMWWAVVTLSTTG 177
>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 = 34.1 bits (77), Expect = 0.051
Identities = 20/135 (14%), Positives = 42/135 (31%), Gaps = 18/135 (13%)
Query: 46 YFYWLLI------ITCCVLYNLWTLIVRQSFPE-LQENGAKFWFFCDYTTDTFIVLDILV 98
F L + I +L +W +++ + + T + I +
Sbjct: 374 MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL 433
Query: 99 QFRTGYLEQGLMVYNSMKLAGHYVKSRAFMLDIISLLPLDL-LYFKIG-----VNPMLRF 152
+ + + + + HY + F D + LD Y IG + R
Sbjct: 434 ELKVKLENEYAL---HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM 490
Query: 153 PRFLKVYRVYDYYYI 167
F V+ D+ ++
Sbjct: 491 TLFRMVF--LDFRFL 503
>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 = 30.8 bits (69), Expect = 0.39
Identities = 20/138 (14%), Positives = 54/138 (39%), Gaps = 29/138 (21%)
Query: 120 HYVKSRAFMLDIISLLP--LDLLYFKIG--------VNPMLRFPRFLKVYRVYDYY-YIV 168
+ + ++DI++++P + + + V +++ R +++ R++ +
Sbjct: 268 GFFTNIMNIIDIVAIIPYYVTIFLTESNKSVLQFQNVRRVVQIFRIMRILRIFKLSRHSK 327
Query: 169 ESRTVYPNLWRVVN----LVHILLIFAHWFGCFYYLLSQAEGFYGDWVYPYRVGEFSTLT 224
+ + L + L+ L I F Y AE D +F ++
Sbjct: 328 GLQILGQTLKASMRELGLLIFFLFIGVILFSSAVYF---AEADERD-------SQFPSIP 377
Query: 225 RKYLGSIYWSTLTLTTIG 242
+ +W+ +++TT+G
Sbjct: 378 D----AFWWAVVSMTTVG 391
>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 = 30.8 bits (69), Expect = 0.49
Identities = 27/189 (14%), Positives = 57/189 (30%), Gaps = 67/189 (35%)
Query: 70 FPELQENGAKFWFFCDYTTDTFIVLDILVQFRTGYLEQGLMVYNSMKLAGHYVKSRAFML 129
F EL++ + Y ++ L++F L + ++ ++ + + L
Sbjct: 170 FEELRD------LYQTYHV----LVGDLIKFSAETLSE--LIRTTLDAEKVFTQG----L 213
Query: 130 DIISLL------PLDLLYFK--------IGVNPMLRFPRFLKV--YRVYDYYYIVESRTV 173
+I+ L P D Y IGV + + K+ + + ++ T
Sbjct: 214 NILEWLENPSNTP-DKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATG 272
Query: 174 YPNLWRVVNLVHILLIFAHWFGCFYYLLSQAEGFYGDWVYPYRVGEFSTLTRKYLGSIYW 233
LV + I ++ W F RK + +++
Sbjct: 273 -----HSQGLVTAVAI------------AET----DSW------ESFFVSVRKAITVLFF 305
Query: 234 STLTLTTIG 242
IG
Sbjct: 306 -------IG 307
Score = 27.3 bits (60), Expect = 6.8
Identities = 31/188 (16%), Positives = 52/188 (27%), Gaps = 70/188 (37%)
Query: 69 SFPELQENGAKFWFFCDYTTD-------TFIVLDILVQFRTGYLEQGLMVYNSMKLAGHY 121
+ EL KF + + ++ L +F YL +G N + H
Sbjct: 56 TPAELV---GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYL-EG----NDI----H- 102
Query: 122 VKSRAFMLDIISLLPLDLLYFKIGVNPMLRFPRFLKVYRVYDYYY---IVESRTVYPN-- 176
+ A L + L +K + Y I+ R
Sbjct: 103 --ALAAKLLQENDTTL------------------VKTKELIKNYITARIMAKRPFDKKSN 142
Query: 177 --LWRVVN--LVHILLIFAHWFGCFYYLLSQAEGFYGDW---------VYPYRVGEFSTL 223
L+R V ++ IF G Q G D+ Y VG+
Sbjct: 143 SALFRAVGEGNAQLVAIFG---G-------Q--GNTDDYFEELRDLYQTYHVLVGDLIKF 190
Query: 224 TRKYLGSI 231
+ + L +
Sbjct: 191 SAETLSEL 198
>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 = 1.1
Identities = 13/67 (19%), Positives = 20/67 (29%), Gaps = 16/67 (23%)
Query: 178 WRVVNLVHILLIFAHW--FGCFYYLLSQAEGFYGDWVYPYRVGEFSTLTRKYLGSIYWST 235
WR + +L F Y L S + G+ ++S
Sbjct: 42 WRWFFVSLAVLFLLLNTAFATLYMLGSAPIANQFPAGFG--------------GAFFFSV 87
Query: 236 LTLTTIG 242
TL T+G
Sbjct: 88 ETLATVG 94
>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 = 29.3 bits (65), Expect = 1.3
Identities = 15/67 (22%), Positives = 26/67 (38%), Gaps = 2/67 (2%)
Query: 178 WRVVNLVHILLIFAHW--FGCFYYLLSQAEGFYGDWVYPYRVGEFSTLTRKYLGSIYWST 235
WR + L+ L W FG ++L++ G + ++ + +S
Sbjct: 44 WRYMLLLFSLAFLVSWLLFGLIFWLIALIHGDLENPGGDDTFKPCVLQVNGFVAAFLFSI 103
Query: 236 LTLTTIG 242
T TTIG
Sbjct: 104 ETQTTIG 110
>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 = 28.6 bits (63), Expect = 1.9
Identities = 13/70 (18%), Positives = 28/70 (40%), Gaps = 5/70 (7%)
Query: 175 PNLWRVVNLVHILLIFAHWFGCFYYLLSQAEGFYGDWVYPYRVGEFS--TLTRKYLGSIY 232
+ ++ V + + +FG ++L++ GD + T ++ +
Sbjct: 41 KWRFNLLIFVMVYTVTWLFFGMIWWLIA---YIRGDMDHIEDPSWTPCVTNLNGFVSAFL 97
Query: 233 WSTLTLTTIG 242
+S T TTIG
Sbjct: 98 FSIETETTIG 107
>2kyh_A KVAP, voltage-gated potassium channel; ION channel, membrane
protein; NMR {Aeropyrum pernix}
Length = 147
Score = 27.6 bits (61), Expect = 2.9
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 129 LDIISLLPLDLLYFKIGVNPMLRFPRFLKVYRV 161
+I +L+P LL G L R +++ R
Sbjct: 88 YEIPALVPAGLLALIEGHLAGLGLFRLVRLLRF 120
>1ors_C Potassium channel; voltage-dependent, voltage sensor, KVAP, FAB
complex, membrane protein; 1.90A {Aeropyrum pernix}
SCOP: f.14.1.1
Length = 132
Score = 27.2 bits (60), Expect = 3.2
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 129 LDIISLLPLDLLYFKIGVNPMLRFPRFLKVYRV 161
+I +L+P LL G L R +++ R
Sbjct: 73 YEIPALVPAGLLALIEGHLAGLGLFRLVRLLRF 105
>2ozv_A Hypothetical protein ATU0636; structural genomics, predicted
transferase, predicted O-methyltransferase, PFAM
PF05175; HET: MSE; 1.70A {Agrobacterium tumefaciens str}
Length = 260
Score = 27.5 bits (61), Expect = 3.8
Identities = 7/67 (10%), Positives = 14/67 (20%), Gaps = 3/67 (4%)
Query: 166 YIVESRTVYPNLWRVVNLVHILLIFAHWFGCFYYLLSQAEGFYGDWVYPY-RVGEFSTLT 224
Y P+ + +F W ++ + V E
Sbjct: 125 YNDAGDRRTPDALKAEAHAMTEGLFEDWIRTASAIMVSGGQLS--LISRPQSVAEIIAAC 182
Query: 225 RKYLGSI 231
G +
Sbjct: 183 GSRFGGL 189
>2wad_A Penicillin-binding protein 2B; peptidoglycan synthesis, transme
antibiotic resistance, cell shape, peptidoglycan; 2.18A
{Streptococcus pneumoniae} PDB: 2wae_A 2waf_A
Length = 680
Score = 27.9 bits (62), Expect = 4.1
Identities = 5/35 (14%), Positives = 7/35 (20%), Gaps = 6/35 (17%)
Query: 22 AGRRPRCRRKKVHHSTVVNPD------SNLYFYWL 50
K + S + SN Y
Sbjct: 417 GSAPIYSWYKLAYGSFPITAVEALEYSSNAYVVQT 451
>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 = 27.2 bits (60), Expect = 4.3
Identities = 17/99 (17%), Positives = 31/99 (31%), Gaps = 23/99 (23%)
Query: 146 VNPMLRFPRFLKVYRVYDYYYIVESRTVYPNLWRVVNLVHILLIFAHWFG--CFYYLLSQ 203
+P + ++ + ++ R WR +LL+ G
Sbjct: 6 HHPPMLSGLLARLVK------LLLGRHGSALQWRAAGAATVLLVIVLLAGSYLAVLAERG 59
Query: 204 AEGFYGDWVYPYRVGEFSTLTRKYLGSIYWSTLTLTTIG 242
A G + T R +++WS T TT+G
Sbjct: 60 APG-----------AQLITYPR----ALWWSVETATTVG 83
>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 = 27.3 bits (60), Expect = 4.8
Identities = 15/67 (22%), Positives = 21/67 (31%), Gaps = 16/67 (23%)
Query: 178 WRVVNLVHILLIFAHW--FGCFYYLLSQAEGFYGDWVYPYRVGEFSTLTRKYLGSIYWST 235
W V + L F Y GD + R G F + ++S
Sbjct: 46 WPVFITLITGLYLVTNALFALAYLAC-------GDVIENARPGSF-------TDAFFFSV 91
Query: 236 LTLTTIG 242
T+ TIG
Sbjct: 92 QTMATIG 98
>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 = 26.3 bits (58), Expect = 5.1
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 230 SIYWSTLTLTTIG 242
+I+WS T TT+G
Sbjct: 44 AIWWSVETATTVG 56
>3zsc_A Pectate trisaccharide-lyase; hydrolase; HET: ADA AQA; 1.94A
{Thermotoga maritima}
Length = 340
Score = 27.2 bits (60), Expect = 6.1
Identities = 9/29 (31%), Positives = 9/29 (31%), Gaps = 6/29 (20%)
Query: 21 HAGRRPRCRRKKVHHSTVVNPDSNLYFYW 49
R PR R H V N N Y
Sbjct: 194 LIQRMPRIRFGMAH---VFN---NFYSMG 216
>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 = 27.1 bits (59), Expect = 6.2
Identities = 12/67 (17%), Positives = 18/67 (26%), Gaps = 16/67 (23%)
Query: 178 WRVVNLVHILLIFAHW--FGCFYYLLSQAEGFYGDWVYPYRVGEFSTLTRKYLGSIYWST 235
W V L + F Y L + G+ ++S
Sbjct: 60 WPVFFASLAALFVVNNTLFALLYQLGDAPIANQSPPGFV--------------GAFFFSV 105
Query: 236 LTLTTIG 242
TL T+G
Sbjct: 106 ETLATVG 112
>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 = 26.4 bits (58), Expect = 6.7
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 227 YLGSIYWSTLTLTTIG 242
L ++Y+S +TLTT+G
Sbjct: 53 PLDALYFSVVTLTTVG 68
>1air_A Pectate lyase C, PELC; pectate cleavage, pectinolyitc activity,
trans-elimination; 2.20A {Erwinia chrysanthemi} SCOP:
b.80.1.1 PDB: 1o88_A 1o8d_A 1o8e_A 1o8f_A 1o8g_A 1o8h_A
1o8i_A 1o8j_A 1o8k_A 1o8l_A 1o8m_A 1plu_A 2pec_A 2ewe_A*
Length = 353
Score = 26.7 bits (58), Expect = 7.6
Identities = 9/29 (31%), Positives = 9/29 (31%), Gaps = 6/29 (20%)
Query: 21 HAGRRPRCRRKKVHHSTVVNPDSNLYFYW 49
R P R VH N NLY
Sbjct: 215 VNARLPLQRGGLVH---AYN---NLYTNI 237
>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 = 25.6 bits (56), Expect = 8.3
Identities = 7/16 (43%), Positives = 13/16 (81%)
Query: 227 YLGSIYWSTLTLTTIG 242
+ ++Y+S +TLTT+G
Sbjct: 33 PIDALYFSVVTLTTVG 48
>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 = 25.9 bits (57), Expect = 8.5
Identities = 16/108 (14%), Positives = 31/108 (28%), Gaps = 23/108 (21%)
Query: 137 LDLLYFKIGVNPMLRFPRFLKVYRVYDYYYIVESRTVYPNLWRVVNLVHILLIFAHWFG- 195
++ I P + ++ + ++ R WR +LL+ G
Sbjct: 14 IEGRGRLIKHMPPMLSGLLARLVK------LLLGRHGSALHWRAAGAATVLLVIVLLAGS 67
Query: 196 -CFYYLLSQAEGFYGDWVYPYRVGEFSTLTRKYLGSIYWSTLTLTTIG 242
A G + +++WS T TT+G
Sbjct: 68 YLAVLAERGAPG-----------AALISYPD----ALWWSVETATTVG 100
>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 = 26.0 bits (57), Expect = 9.0
Identities = 6/13 (46%), Positives = 10/13 (76%)
Query: 230 SIYWSTLTLTTIG 242
+++WS T TT+G
Sbjct: 44 ALWWSVETATTVG 56
>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 = 25.0 bits (55), Expect = 9.3
Identities = 6/16 (37%), Positives = 12/16 (75%)
Query: 227 YLGSIYWSTLTLTTIG 242
+ S+YW+ +T+ T+G
Sbjct: 29 WTVSLYWTFVTIATVG 44
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 0.145 0.481
Gapped
Lambda K H
0.267 0.0582 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,173,683
Number of extensions: 244522
Number of successful extensions: 518
Number of sequences better than 10.0: 1
Number of HSP's gapped: 514
Number of HSP's successfully gapped: 32
Length of query: 252
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 161
Effective length of database: 4,160,982
Effective search space: 669918102
Effective search space used: 669918102
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: 56 (25.7 bits)