RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3581
(146 letters)
>4f11_A Gamma-aminobutyric acid type B receptor subunit 2; venus flytrap
module, G-protein coupled receptor, signaling; 2.38A
{Homo sapiens} PDB: 4f12_A*
Length = 433
Score = 94.2 bits (234), Expect = 1e-23
Identities = 47/124 (37%), Positives = 65/124 (52%), Gaps = 6/124 (4%)
Query: 10 RAHNKLLAEMLDSGIDVMVSHSFSDEISTALAKLKETDVRIILGNFNEFWAKMIFCEAYR 69
N L + I++ + SFS++ T++ KLK DVRIILG F++ A +FC AY
Sbjct: 169 EVRNDLTGVLYGEDIEISDTESFSNDPCTSVKKLKGNDVRIILGQFDQNMAAKVFCCAYE 228
Query: 70 IGMIGRKYQWLIIGMYSESWWNGSLP------CPIEELVTALDGCILTDLLPLSTSGEIT 123
M G KYQW+I G Y SWW C + L+ A++G I D PLS+ T
Sbjct: 229 ENMYGSKYQWIIPGWYEPSWWEQVHTEANSSRCLRKNLLAAMEGYIGVDFEPLSSKQIKT 288
Query: 124 VSGI 127
+SG
Sbjct: 289 ISGK 292
>3h6g_A Glutamate receptor, ionotropic kainate 2; membrane protein
glycoprotein, cell junction, cell membrane,
glycoprotein, ION transport; HET: NAG TLA; 2.70A {Rattus
norvegicus} PDB: 3h6h_A* 3qlv_C 3qlu_C* 3qlt_A* 3olz_A*
Length = 395
Score = 52.0 bits (124), Expect = 7e-09
Identities = 9/88 (10%), Positives = 30/88 (34%), Gaps = 2/88 (2%)
Query: 9 YRAHNKLLAEMLDSGIDVMVSH--SFSDEISTALAKLKETDVRIILGNFNEFWAKMIFCE 66
+L+ + + + + + + L ++K ++ + + A I +
Sbjct: 151 LIRLQELIKAPSRYNLRLKIRQLPADTKDAKPLLKEMKRGKEFHVIFDCSHEMAAGILKQ 210
Query: 67 AYRIGMIGRKYQWLIIGMYSESWWNGSL 94
A +GM+ Y ++ + +
Sbjct: 211 ALAMGMMTEYYHYIFTTLDLFALDVEPY 238
>3om0_A Glutamate receptor, ionotropic kainate 5; membrane protein, ION
channel; HET: NAG BMA GOL; 1.40A {Rattus norvegicus}
PDB: 3om1_A* 3qlu_A* 3qlv_A
Length = 393
Score = 49.8 bits (118), Expect = 4e-08
Identities = 14/79 (17%), Positives = 34/79 (43%), Gaps = 1/79 (1%)
Query: 14 KLLAEMLDSGIDVMVSHSF-SDEISTALAKLKETDVRIILGNFNEFWAKMIFCEAYRIGM 72
+L+ L S + V S + + L ++++ V I+ + N + ++ +A +GM
Sbjct: 157 ELVRGFLISKETLSVRMLDDSRDPTPLLKEIRDDKVSTIIIDANASISHLVLRKASELGM 216
Query: 73 IGRKYQWLIIGMYSESWWN 91
Y++++ M
Sbjct: 217 TSAFYKYILTTMDFPILHL 235
>1jdp_A NPR-C, atrial natriuretic peptide clearance receptor;
hormone-receptor complex, natriuretic peptide receptor,
ALLO activation, signaling protein; HET: NDG NAG; 2.00A
{Homo sapiens} SCOP: c.93.1.1 PDB: 1jdn_A* 1yk0_A*
1yk1_A*
Length = 441
Score = 49.0 bits (116), Expect = 9e-08
Identities = 12/87 (13%), Positives = 30/87 (34%), Gaps = 2/87 (2%)
Query: 9 YRAHNKLLAEMLDSGIDVMVSHSFS--DEISTALAKLKETDVRIILGNFNEFWAKMIFCE 66
Y + + G+ + D + + + R+++ + + I
Sbjct: 171 YFTLEGVHEVFQEEGLHTSIYSFDETKDLDLEDIVRNIQASERVVIMCASSDTIRSIMLV 230
Query: 67 AYRIGMIGRKYQWLIIGMYSESWWNGS 93
A+R GM Y + I +++ S +
Sbjct: 231 AHRHGMTSGDYAFFNIELFNSSSYGDG 257
>3saj_A Glutamate receptor 1; rossman fold, ION channel, membrane,
transport protein; HET: NAG BMA MAN; 2.50A {Rattus
norvegicus}
Length = 384
Score = 47.8 bits (113), Expect = 2e-07
Identities = 7/85 (8%), Positives = 25/85 (29%), Gaps = 3/85 (3%)
Query: 13 NKLLAEMLDSGIDVMVSHSFSDE---ISTALAKLKETDVRIILGNFNEFWAKMIFCEAYR 69
++L + V + + L++ R+++ + I + +
Sbjct: 145 QRVLDTAAEKNWQVTAVNILTTTEEGYRMLFQDLEKKKERLVVVDCESERLNAILGQIVK 204
Query: 70 IGMIGRKYQWLIIGMYSESWWNGSL 94
+ G Y +++ +
Sbjct: 205 LEKNGIGYHYILANLGFMDIDLNKF 229
>3qek_A NMDA glutamate receptor subunit; amino terminal domain, ION
channel, NMDA receptor, allosteri modulation,
phenylethanolamine, polyamine; HET: NAG BMA; 2.00A
{Xenopus laevis} PDB: 3qel_A* 3qem_A* 3q41_A*
Length = 384
Score = 47.8 bits (113), Expect = 2e-07
Identities = 17/70 (24%), Positives = 32/70 (45%), Gaps = 4/70 (5%)
Query: 26 VMVSHSFSDEISTALAKLKETDVRIILGNFNEFWAKMIFCEAYRIGMIGRKYQWLIIGMY 85
V+ + ++ L + KE + R+I+ + +E A ++ A + M G Y WL+
Sbjct: 194 VLQFEPGTKNLTALLLEAKELEARVIILSASEDDATAVYKSAAMLDMTGAGYVWLV---- 249
Query: 86 SESWWNGSLP 95
E +GS
Sbjct: 250 GEREISGSAL 259
>3o21_A Glutamate receptor 3; periplasmatic binding protein,
oligomerization, membrane, TR protein; HET: NAG; 2.20A
{Rattus norvegicus} PDB: 3p3w_A
Length = 389
Score = 45.6 bits (107), Expect = 1e-06
Identities = 7/87 (8%), Positives = 24/87 (27%), Gaps = 4/87 (4%)
Query: 13 NKLLAEMLDSGIDVMV----SHSFSDEISTALAKLKETDVRIILGNFNEFWAKMIFCEAY 68
++ + + V + E + ++ + L + I +
Sbjct: 147 QAIMEAAVQNNWQVTARSVGNIKDVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVV 206
Query: 69 RIGMIGRKYQWLIIGMYSESWWNGSLP 95
+G R Y +++ + +
Sbjct: 207 ILGKHSRGYHYMLANLGFTDILLERVM 233
>3qel_B Glutamate [NMDA] receptor subunit epsilon-2; ION channel,
allosteric modulation, phenylethanolamine,
N-glycosylation, extracellular; HET: NAG BMA MAN FUC
QEL; 2.60A {Rattus norvegicus} PDB: 3qem_B* 3jpw_A*
3jpy_A*
Length = 364
Score = 43.3 bits (101), Expect = 8e-06
Identities = 16/56 (28%), Positives = 26/56 (46%)
Query: 26 VMVSHSFSDEISTALAKLKETDVRIILGNFNEFWAKMIFCEAYRIGMIGRKYQWLI 81
+++ S D S +LK+ IIL + A IF A +G+ G Y W++
Sbjct: 173 LLLDMSLDDGDSKIQNQLKKLQSPIILLYCTKEEATYIFEVANSVGLTGYGYTWIV 228
>1dp4_A Atrial natriuretic peptide receptor A; periplasmic binding protein
fold, dimer, hormone/growth FACT receptor, lyase
complex; HET: NAG; 2.00A {Rattus norvegicus} SCOP:
c.93.1.1 PDB: 1t34_A* 3a3k_A*
Length = 435
Score = 42.8 bits (100), Expect = 1e-05
Identities = 15/133 (11%), Positives = 37/133 (27%), Gaps = 6/133 (4%)
Query: 2 YFIRILMYRAHNKLLAEMLDSGIDVMVSHSFS----DEISTALAKLKETDVRIILGNFNE 57
+ L + + + F D L ++ R+I +
Sbjct: 158 LGDDRPCFFIVEGLYMRVRERLNITVNHQEFVEGDPDHYPKLLRAVRR-KGRVIYICSSP 216
Query: 58 FWAKMIFCEAYRIGMIGRKYQWLIIGMYSESWWNGSLPCPIEELVTALDGCILTDLLPLS 117
+ + A G+ G Y + + ++ +S + ++ DG +
Sbjct: 217 DAFRNLMLLALNAGLTGEDYVFFHLDVFGQSLKSAQ-GLVPQKPWERGDGQDRSARQAFQ 275
Query: 118 TSGEITVSGIVST 130
+ IT +
Sbjct: 276 AAKIITYKEPDNP 288
>3hsy_A Glutamate receptor 2; ligand-gated ION channel, synapse, cell CELL
membrane, endoplasmic reticulum, glycoprotein, ION TRA
ionic channel; HET: NAG BMA; 1.75A {Rattus norvegicus}
PDB: 3h5v_A* 3h5w_A 3o2j_A* 2wjw_A* 2wjx_A 3n6v_A
Length = 376
Score = 38.6 bits (89), Expect = 3e-04
Identities = 9/89 (10%), Positives = 23/89 (25%), Gaps = 7/89 (7%)
Query: 9 YRAHNKLLAEMLDSGIDVMVSHSF-------SDEISTALAKLKETDVRIILGNFNEFWAK 61
+L + V + + + L+ R ++ +
Sbjct: 134 LSTLQAVLDSAAEKKWQVTAINVGNINNDKKDETYRSLFQDLELKKERRVILDCERDKVN 193
Query: 62 MIFCEAYRIGMIGRKYQWLIIGMYSESWW 90
I + IG + Y ++I +
Sbjct: 194 DIVDQVITIGKHVKGYHYIIANLGFTDGD 222
>3kg2_A Glutamate receptor 2; ION channel, membrane protein, cell membrane,
glycoprotein, transport, membrane, postsynaptic cell
membrane, editing; HET: ZK1 NAG BMA; 3.60A {Rattus
norvegicus}
Length = 823
Score = 33.2 bits (75), Expect = 0.025
Identities = 8/80 (10%), Positives = 24/80 (30%)
Query: 24 IDVMVSHSFSDEISTALAKLKETDVRIILGNFNEFWAKMIFCEAYRIGMIGRKYQWLIIG 83
+ + + + + L+ R ++ + I + IG + Y ++I
Sbjct: 156 VGNINNDKKDETYRSLFQDLELKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIAN 215
Query: 84 MYSESWWNGSLPCPIEELVT 103
+ + E+
Sbjct: 216 LGFTDGDLLKIQFGGAEVSG 235
>2opl_A Hypothetical protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE P6G; 1.50A {Geobacter sulfurreducens}
SCOP: d.227.1.1 PDB: 2opl_B*
Length = 187
Score = 28.9 bits (64), Expect = 0.53
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 91 NGSLPCPIEELVTALDGCILTDLLPLSTSGEITVSGI 127
P+E L+ AL GC+ T L+ + + I + G+
Sbjct: 79 ENRGANPVEYLLVALSGCLTTSLVAHAAARGIALRGV 115
>2onf_A Hypothetical protein TA0195; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE COA; 1.70A {Thermoplasma acidophilum}
SCOP: d.227.1.1
Length = 140
Score = 27.9 bits (62), Expect = 0.85
Identities = 9/41 (21%), Positives = 12/41 (29%)
Query: 91 NGSLPCPIEELVTALDGCILTDLLPLSTSGEITVSGIVSTV 131
P + L C+LT L I + S V
Sbjct: 37 PEGQLYPETLFPSVLASCLLTTFLEFKDRMGINLKSWNSHV 77
>3aon_B V-type sodium ATPase subunit G; V-ATPase, coiled-coil, alpha/beta
fold, hydrol Na(+)-ATPase, NTPA3-NTPB3, NTPC, central
AXIS; HET: MSE; 2.00A {Enterococcus hirae}
Length = 115
Score = 26.2 bits (58), Expect = 2.5
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 23 GIDVMVSHSFSDEISTALAKLKETDVRIILGNFNEFWAKMI 63
G DV + EI + ++ + + +I E A ++
Sbjct: 21 GFDVQHGTT-KTEIRKTIDEMAKNEYGVIY--ITEQCANLV 58
>3p5p_A Taxadiene synthase; class I and II terpene cyclase fold, diterpene
cyclase, DDXX NSE/DTE motif, 3-azacopalyl diphosphate;
HET: A3C; 1.82A {Taxus brevifolia} PDB: 3p5r_A*
Length = 764
Score = 26.7 bits (58), Expect = 3.5
Identities = 6/54 (11%), Positives = 16/54 (29%), Gaps = 1/54 (1%)
Query: 48 VRIILGNFNEFWAKMIFCE-AYRIGMIGRKYQWLIIGMYSESWWNGSLPCPIEE 100
++ E ++ + + I + ++ E W + P E
Sbjct: 545 FKVWFKLMEEVNNDVVKVQGRDMLAHIRKPWELYFNCYVQEREWLEAGYIPTFE 598
>3n0f_A Isoprene synthase; terpene cyclase fold, hemiterpene synthase,
DDXXD motif, NSE motif, lyase; 2.70A {Populus tremula x
populus alba} PDB: 3n0g_A*
Length = 555
Score = 26.3 bits (57), Expect = 4.4
Identities = 10/73 (13%), Positives = 20/73 (27%), Gaps = 3/73 (4%)
Query: 48 VRIILGNFNEFWAKMIFCE-AYRIGMIGRKYQWLIIGMYSESWW--NGSLPCPIEELVTA 104
+ NE + + + + + + L E+ W N S P + A
Sbjct: 343 FLALYNTINEIAYDNLKDKGENILPYLTKAWADLCNAFLQEAKWLYNKSTPTFDDYFGNA 402
Query: 105 LDGCILTDLLPLS 117
L +
Sbjct: 403 WKSSSGPLQLIFA 415
>3otd_A TRNA(His) guanylyltransferase; polymerase-like PALM domain,
catalytic carboxylates; 2.28A {Homo sapiens} PDB:
3otc_A 3otb_A 3ote_A
Length = 269
Score = 26.1 bits (57), Expect = 4.5
Identities = 7/31 (22%), Positives = 16/31 (51%), Gaps = 4/31 (12%)
Query: 7 LMYRAHNKLLAEMLDSGIDVMVSHSFSDEIS 37
LM + +++ D+++++ SDE S
Sbjct: 53 LMTKC----AQTVMEELEDIVIAYGQSDEYS 79
>3qg2_A Bifunctional dihydrofolate reductase-thymidylate; pyrimethamine,
antifolate resistance, oxidoreductase, transferase; HET:
CP6 NDP UMP; 2.30A {Plasmodium falciparum} PDB: 3jsu_A*
3qgt_A*
Length = 608
Score = 26.1 bits (57), Expect = 5.9
Identities = 10/45 (22%), Positives = 14/45 (31%), Gaps = 2/45 (4%)
Query: 37 STALAKLKETDVRIILGNFNEFWAKMIFCEAYRIGMIGRKY--QW 79
T L +VRI N + + +G Y QW
Sbjct: 390 ETNGNTLLNKNVRIWEANGTREFLDNRKLFHREVNDLGPIYGFQW 434
>2vac_A Twinfilin-2; transferase, actin binding, phosphorylation,
cofilin-like, cytoskeleton, actin-binding, protein
tyrosine kinase-9; 1.70A {Homo sapiens}
Length = 134
Score = 25.3 bits (55), Expect = 6.5
Identities = 8/31 (25%), Positives = 13/31 (41%), Gaps = 6/31 (19%)
Query: 22 SGIDVMVSHSFSDEISTALAKLKETDVRIIL 52
GI ++E+ AK + VR+I
Sbjct: 2 MGIHA------TEELKEFFAKARAGSVRLIK 26
>1j3k_C Bifunctional dihydrofolate reductase-thymidylate synthase;
oxidoreductase, transferase; HET: WRA NDP UMP; 2.10A
{Plasmodium falciparum} SCOP: d.117.1.1 PDB: 1j3i_C*
1j3j_C* 3dg8_C* 3dga_C*
Length = 328
Score = 25.8 bits (57), Expect = 6.8
Identities = 10/45 (22%), Positives = 14/45 (31%), Gaps = 2/45 (4%)
Query: 37 STALAKLKETDVRIILGNFNEFWAKMIFCEAYRIGMIGRKY--QW 79
T L +VRI N + + +G Y QW
Sbjct: 110 ETNGNTLLNKNVRIWEANGTREFLDNRKLFHREVNDLGPIYGFQW 154
>1e8c_A UDP-N-acetylmuramoylalanyl-D-glutamate--2,6- diaminopimelate
ligase; peptidoglycan biosynthesis; HET: KCX UAG API;
2.00A {Escherichia coli} SCOP: c.98.1.1 c.59.1.1
c.72.2.1
Length = 498
Score = 25.6 bits (57), Expect = 6.9
Identities = 6/22 (27%), Positives = 8/22 (36%), Gaps = 4/22 (18%)
Query: 13 NKLLAEMLDSGIDVMV----SH 30
LA ++D G SH
Sbjct: 165 QHELAGLVDQGATFCAMEVSSH 186
>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 = 25.8 bits (56), Expect = 7.6
Identities = 12/79 (15%), Positives = 23/79 (29%), Gaps = 26/79 (32%)
Query: 86 SESWWNGSLPCPI-------------EELVTALDGCILTDLL--PLSTSGEIT------- 123
+ S+ + P+ + + CI+ + +T + T
Sbjct: 447 NVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGP 506
Query: 124 --VSGIVSTVLLSSVPGGT 140
SG+ VL GT
Sbjct: 507 GGASGL--GVLTHRNKDGT 523
>1jqo_A Phosphoenolpyruvate carboxylase; beta barrel, carbon dioxide
fixation, lyase; 3.00A {Zea mays} SCOP: c.1.12.3
Length = 970
Score = 25.6 bits (56), Expect = 8.3
Identities = 10/51 (19%), Positives = 20/51 (39%), Gaps = 4/51 (7%)
Query: 29 SHS-FSDEISTALAKLKETDVRIILGNFNEFWAKMIFCEAYR---IGMIGR 75
S +DE+ +L + + + EFW ++ E YR + +
Sbjct: 331 SMWRCNDELRVRAEELHSSSGSKVTKYYIEFWKQIPPNEPYRVILGHVRDK 381
>1f28_A Thymidylate synthase; beta-sheet, protein-inhibitor complex,
transferase; HET: UMP F89; 1.90A {Pneumocystis carinii}
SCOP: d.117.1.1 PDB: 1ci7_A*
Length = 297
Score = 25.3 bits (56), Expect = 8.5
Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 2/45 (4%)
Query: 37 STALAKLKETDVRIILGNFNEFWAKMIFCEAYRIGMIGRKY--QW 79
T KL+E ++ I N + + I + G +G Y QW
Sbjct: 73 ETDSLKLREKNIHIWDANGSREYLDSIGLTKRQEGDLGPIYGFQW 117
>2q5c_A NTRC family transcriptional regulator; structural genomics, protein
structure initiative; HET: SO4 GOL; 1.49A {Clostridium
acetobutylicum atcc 824}
Length = 196
Score = 25.1 bits (55), Expect = 8.6
Identities = 11/40 (27%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 14 KLLAEMLDSGIDVMVSHSFSDEISTALAKLKETDVRIILG 53
+ ML I + S DEI+T ++K+K +++I++
Sbjct: 110 HEIEAMLGVKIKEFLFSS-EDEITTLISKVKTENIKIVVS 148
>2e8e_A Hypothetical protein AQ_1549; osmatically induced protein; 1.70A
{Aquifex aeolicus} PDB: 2e8c_A 2e8f_A 2egt_A
Length = 132
Score = 24.9 bits (54), Expect = 8.8
Identities = 7/37 (18%), Positives = 14/37 (37%)
Query: 95 PCPIEELVTALDGCILTDLLPLSTSGEITVSGIVSTV 131
P+E L+ ++ C D+ + V I +
Sbjct: 32 LNPMELLLVSIGSCSGVDVYHILKKKRQEVKDIKIFL 68
>3m6y_A 4-hydroxy-2-oxoglutarate aldolase; structural genomics, MCSG,
lyase, PSI-2, protein structure initiative; HET: MSE;
1.45A {Bacillus cereus} PDB: 3n73_A 3mux_A
Length = 275
Score = 25.0 bits (54), Expect = 9.5
Identities = 8/33 (24%), Positives = 16/33 (48%)
Query: 20 LDSGIDVMVSHSFSDEISTALAKLKETDVRIIL 52
L++ ++ ++ H +S I K VR +L
Sbjct: 232 LEANVEQVIPHVYSSIIDKETGNTKVEAVRELL 264
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
0.323 0.138 0.420
Gapped
Lambda K H
0.267 0.0597 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,311,970
Number of extensions: 132220
Number of successful extensions: 403
Number of sequences better than 10.0: 1
Number of HSP's gapped: 403
Number of HSP's successfully gapped: 34
Length of query: 146
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 61
Effective length of database: 4,328,508
Effective search space: 264038988
Effective search space used: 264038988
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.5 bits)