RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8958
(294 letters)
>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like
protein 1A, GTPase, membrane fission, motor Pro; HET:
GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*
Length = 360
Score = 141 bits (358), Expect = 5e-40
Identities = 38/148 (25%), Positives = 70/148 (47%), Gaps = 1/148 (0%)
Query: 1 MTRSPVKVTLSEGPYHVAQFKDSSREFDLTKESDLVELRKEVERRMMNSVRKGKTVSNEV 60
+TR P+ + L + ++ + K +D +RKE++ + K +S+
Sbjct: 67 VTRRPLVLQLQKIDDGTREYAEFL-HLPRKKFTDFAAVRKEIQDETDRETGRSKAISSVP 125
Query: 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV 120
I +S+ P + + L+DLPG+ + + I M ++++ PN IIL I +
Sbjct: 126 IHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQ 185
Query: 121 DAERSNVTDLVSQMDPQGKRTIFVLTKV 148
D S+ + ++DP G RT VLTK+
Sbjct: 186 DLATSDAIKISREVDPSGDRTFGVLTKI 213
>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin,
fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A
{Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*
Length = 315
Score = 139 bits (351), Expect = 2e-39
Identities = 60/288 (20%), Positives = 106/288 (36%), Gaps = 83/288 (28%)
Query: 1 MTRSPVKVTLSEGPYHVAQFKDSS-REF---DLTKESDLVELRKEVERRMMNSVRKGKTV 56
+TR P+ + L+ P + EF D E+R+E+ R K K +
Sbjct: 57 VTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREEIIRDTDRMTGKNKGI 116
Query: 57 SNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQ 116
S + I++ + P + + LVDLPGI D +D IR+M ++ NAII+ +
Sbjct: 117 SAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVT 176
Query: 117 DGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQLIRIEKDGSVDAERSNVTDLGSVMD 176
+ D S+ L ++DP+GKRT
Sbjct: 177 PANTDLANSDALQLAKEVDPEGKRT----------------------------------- 201
Query: 177 LQGKHTIFVLTKVSQQVSMSPPLSPSGQKHRLIKSFIVCLQVDLAEENHSDPQRIKKILA 236
I V+TK+ DL ++ ++L
Sbjct: 202 ------IGVITKL-----------------------------DLMDKG----TDAMEVLT 222
Query: 237 GKLFPMKALGYFAVVTGRGGK---KDESIQDIKEYEENFFKKSKLFST 281
G++ P+ LG+ V+ R + +SI++ + E +FK ++ +
Sbjct: 223 GRVIPLT-LGFIGVIN-RSQEDIIAKKSIRESLKSEILYFKNHPIYKS 268
>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle
protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB:
3l43_A*
Length = 299
Score = 133 bits (336), Expect = 3e-37
Identities = 43/148 (29%), Positives = 69/148 (46%), Gaps = 4/148 (2%)
Query: 1 MTRSPVKVTLSEGPYHVAQFKDSSREFDLTKESDLVELRKEVERRMMNSVRKGKTVSNEV 60
+TR P+ + L A+F + K +D E+R E+E K +S
Sbjct: 59 VTRRPLVLQLVNSTTEYAEFLHCKGK----KFTDFEEVRLEIEAETDRVTGTNKGISPVP 114
Query: 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV 120
I++ V P + + LVDLPG+ D D IR M ++ N +IL + +
Sbjct: 115 INLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANS 174
Query: 121 DAERSNVTDLVSQMDPQGKRTIFVLTKV 148
D S+ + ++DPQG+RTI V+TK+
Sbjct: 175 DLANSDALKIAKEVDPQGQRTIGVITKL 202
>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission,
nucleotide-binding, endocytosis, motor protein; HET:
GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A
Length = 353
Score = 133 bits (335), Expect = 1e-36
Identities = 43/148 (29%), Positives = 69/148 (46%), Gaps = 4/148 (2%)
Query: 1 MTRSPVKVTLSEGPYHVAQFKDSSREFDLTKESDLVELRKEVERRMMNSVRKGKTVSNEV 60
+TR P+ + L A+F + K +D E+R E+E K +S
Sbjct: 64 VTRRPLVLQLVNATTEYAEFLHCKGK----KFTDFEEVRLEIEAETDRVTGTNKGISPVP 119
Query: 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV 120
I++ V P + + LVDLPG+ D D IR M ++ N +IL + +
Sbjct: 120 INLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANS 179
Query: 121 DAERSNVTDLVSQMDPQGKRTIFVLTKV 148
D S+ + ++DPQG+RTI V+TK+
Sbjct: 180 DLANSDALKVAKEVDPQGQRTIGVITKL 207
>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial
fission, GT stalk, PH, BSE, membrane fission; HET: 1PE;
3.10A {Rattus norvegicus} PDB: 3snh_A
Length = 772
Score = 137 bits (346), Expect = 1e-36
Identities = 43/148 (29%), Positives = 69/148 (46%), Gaps = 4/148 (2%)
Query: 1 MTRSPVKVTLSEGPYHVAQFKDSSREFDLTKESDLVELRKEVERRMMNSVRKGKTVSNEV 60
+TR P+ + L A+F + K +D E+R E+E K +S
Sbjct: 84 VTRRPLVLQLVNSTTEYAEFLHCKGK----KFTDFEEVRLEIEAETDRVTGTNKGISPVP 139
Query: 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV 120
I++ V P + + LVDLPG+ D D IR M ++ N +IL + +
Sbjct: 140 INLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANS 199
Query: 121 DAERSNVTDLVSQMDPQGKRTIFVLTKV 148
D S+ + ++DPQG+RTI V+TK+
Sbjct: 200 DLANSDALKIAKEVDPQGQRTIGVITKL 227
>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced
antiviral GTPase, membrane associated, PR binding; 3.50A
{Homo sapiens} PDB: 3zys_B
Length = 608
Score = 119 bits (300), Expect = 1e-30
Identities = 35/148 (23%), Positives = 70/148 (47%)
Query: 1 MTRSPVKVTLSEGPYHVAQFKDSSREFDLTKESDLVELRKEVERRMMNSVRKGKTVSNEV 60
+TR P+ + L + S + + SD E+ KE+ + +G +S+E+
Sbjct: 77 VTRCPLVLKLKKLVNEDKWRGKVSYQDYEIEISDASEVEKEINKAQNAIAGEGMGISHEL 136
Query: 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV 120
I++ + + + L+DLPGI + + +D I+ + + ++ I L + +V
Sbjct: 137 ITLEISSRDVPDLTLIDLPGITRVAVGNQPADIGYKIKTLIKKYIQRQETISLVVVPSNV 196
Query: 121 DAERSNVTDLVSQMDPQGKRTIFVLTKV 148
D + + ++DP+G RTI +LTK
Sbjct: 197 DIATTEALSMAQEVDPEGDRTIGILTKP 224
>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 = 46.4 bits (109), Expect = 8e-06
Identities = 40/315 (12%), Positives = 84/315 (26%), Gaps = 87/315 (27%)
Query: 27 FDL-------TKESDLVELRKEVERR--MMNSVRKGKTVSN------EVISMSVKGPGLQ 71
F+L T+ + + ++ T + + +
Sbjct: 262 FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ----- 316
Query: 72 RMVLVDLP-----------GIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV 120
DLP II+ S +D T D + + ++ I +
Sbjct: 317 -----DLPREVLTTNPRRLSIIAESIRDGL-ATWDNWKHVNCDKLTT--IIESSLNVLEP 368
Query: 121 DAERSNVTDLVSQMDPQGKRTIFVL-TKVSQQLIRI--EKDGSVDAERSNVTDL--GSVM 175
R L +F + L+ + D V L S++
Sbjct: 369 AEYRKMFDRLS----------VFPPSAHIPTILLSLIWFDVIKSDVMVV-VNKLHKYSLV 417
Query: 176 DLQGKHTIFVLTKVSQQVSMSPPLSPSGQKHR-LIKSFIVCLQVD------LAEEN---- 224
+ Q K + + S + + L HR ++ + + D +
Sbjct: 418 EKQPKESTISIP--SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYS 475
Query: 225 ----H-SDPQRIKKILAGKLFPMKALGY-F---------AVVTGRGGKKDESIQDIKEYE 269
H + + +++ LF M L + F G + ++Q +K Y+
Sbjct: 476 HIGHHLKNIEHPERM---TLFRMVFLDFRFLEQKIRHDSTAWNASGSILN-TLQQLKFYK 531
Query: 270 ENFFKKSKLFSTKVR 284
+ V
Sbjct: 532 PYICDNDPKYERLVN 546
>2qpt_A EH domain-containing protein-2; protein-nucleotide complex,
membrane protein, endocytosis; HET: ANP; 3.10A {Mus
musculus}
Length = 550
Score = 35.5 bits (81), Expect = 0.017
Identities = 20/107 (18%), Positives = 42/107 (39%), Gaps = 7/107 (6%)
Query: 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAII 112
G T N + + L+ + ++D PGI+S + Q + +R + +I
Sbjct: 136 GNTFLNRFMCAQLPNQVLESISIIDTPGILSGAKQRV---SRGYDFPAVLRWFAERVDLI 192
Query: 113 LCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKV----SQQLIRI 155
+ + D ++ + + + VL K +QQL+R+
Sbjct: 193 ILLFDAHKLEISDEFSEAIGALRGHEDKIRVVLNKADMVETQQLMRV 239
>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP;
1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A*
2j3e_A*
Length = 262
Score = 33.3 bits (76), Expect = 0.064
Identities = 18/119 (15%), Positives = 43/119 (36%), Gaps = 11/119 (9%)
Query: 43 ERRMMNSVRKGKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQ 102
E+ + S + + + ++S ++ G + ++D PG++ + +LI+
Sbjct: 59 EQVVRVSPFQAEGLRPVMVSRTMGG---FTINIIDTPGLVEAGYVN--HQALELIKGFLV 113
Query: 103 THMSNPNAIILCIQDGSVDAERSNVTDLVSQM--DPQGKRTIFVLTKVSQQLIRIEKDG 159
+ + + +VD V ++Q +T+ VLT D
Sbjct: 114 NRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQF----SPPDE 168
>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 = 31.9 bits (72), Expect = 0.29
Identities = 19/94 (20%), Positives = 34/94 (36%), Gaps = 8/94 (8%)
Query: 184 FVLTKVSQQVSMSPPLSPSGQKHRLIKSFIVCLQVDLAEENHSDPQRIKKILAGKLFPMK 243
L+ S + + P + +L + F L D L GK F
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGK-F--- 64
Query: 244 ALGYFA--VVTGRGGKKDESIQD-IKEYEENFFK 274
LGY + V + G+ D+ + + E+E + +
Sbjct: 65 -LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLE 97
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.3 bits (67), Expect = 0.36
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 8/31 (25%)
Query: 227 DPQRIKKILAG-KLF-----PMKALGYFAVV 251
+ Q +KK+ A KL+ P AL A +
Sbjct: 18 EKQALKKLQASLKLYADDSAP--ALAIKATM 46
>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer,
immunology, signaling protein; HET: GDP; 1.95A {Mus
musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A*
1tq2_A*
Length = 413
Score = 30.4 bits (68), Expect = 0.65
Identities = 17/81 (20%), Positives = 27/81 (33%), Gaps = 12/81 (14%)
Query: 68 PGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNV 127
P + +V DLPGI ST+ + + + I+ +
Sbjct: 117 PNIPNVVFWDLPGIGSTNFPPD--------TYLEKMKFYEYDFFIIISATRFKKNDI--- 165
Query: 128 TDLVSQMDPQGKRTIFVLTKV 148
D+ + K FV TKV
Sbjct: 166 -DIAKAISMMKKEFYFVRTKV 185
>3cuo_A Uncharacterized HTH-type transcriptional regulato; DNA-binding
transcriptional regulator, structural genomics, MCSG;
2.00A {Escherichia coli K12}
Length = 99
Score = 28.4 bits (64), Expect = 1.0
Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 13/63 (20%)
Query: 105 MSNPNAI-ILCIQDGSVDAERSNVTDLVSQMD-PQGKRTIFVLTKVSQQLIRIEKDGSVD 162
MS+P + ILC+ + ++ +L + SQ L R+ +G +D
Sbjct: 21 MSHPKRLLILCML---SGSPGTSAGELTRITGLSA--------SATSQHLARMRDEGLID 69
Query: 163 AER 165
++R
Sbjct: 70 SQR 72
>2js7_A Myeloid differentiation primary response protein MYD88;
MYD88_human, TIR domain, TOLL like receptor adaptor
domain, innate immune signaling; NMR {Homo sapiens} PDB:
2z5v_A
Length = 160
Score = 28.9 bits (65), Expect = 1.1
Identities = 9/66 (13%), Positives = 23/66 (34%), Gaps = 5/66 (7%)
Query: 82 ISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRT 141
I D +++M + + LC+ D V + ++ + +R
Sbjct: 21 ICYCPSD-----IQFVQEMIRQLEQTNYRLKLCVSDRDVLPGTCVWSIASELIEKRCRRM 75
Query: 142 IFVLTK 147
+ V++
Sbjct: 76 VVVVSD 81
>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO,
cell inner membrane, cell ME GTP-binding, ION transport,
membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A*
3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*
Length = 274
Score = 29.6 bits (67), Expect = 1.2
Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 15/72 (20%)
Query: 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGI--ISTSTQDMASD---TRDLIRQMTQTHMSN 107
G TV + S ++ LVDLPG ++T + + D I +
Sbjct: 35 GVTVERKEGQFSTTD---HQVTLVDLPGTYSLTTISSQTSLDEQIACHYILS------GD 85
Query: 108 PNAIILCIQDGS 119
+ +I + D S
Sbjct: 86 ADLLI-NVVDAS 96
>1vbf_A 231AA long hypothetical protein-L-isoaspartate O-
methyltransferase; trimeric coiled coil assembly; 2.80A
{Sulfolobus tokodaii} SCOP: c.66.1.7
Length = 231
Score = 28.0 bits (63), Expect = 3.3
Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 130 LVSQMDPQGKRTIFVLTKVSQQLIRIEKDGSVDAERSNVTDLGSVM--DLQGKH 181
Q+ G + + Q+L ++ K G ++ +LG VM + G +
Sbjct: 151 PYEQLKEGGIMILPIGVGRVQKLYKVIKKG----NSPSLENLGEVMFGRIGGLY 200
>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake,
cell inner membrane, cell GTP-binding, ION transport,
membrane; 2.50A {Legionella pneumophila}
Length = 256
Score = 27.6 bits (62), Expect = 4.2
Identities = 14/81 (17%), Positives = 26/81 (32%), Gaps = 22/81 (27%)
Query: 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGIIS-TSTQDMASD----TRDLIRQMTQTHMSN 107
G TV + + + + DLPG+ S + + S + +
Sbjct: 33 GVTVEKKTGEFLLGE---HLIEITDLPGVYSLVANAEGISQDEQIAAQSV-------IDL 82
Query: 108 PNAIILCIQDGSVDA---ERS 125
I+ + +DA ER
Sbjct: 83 EYDCIINV----IDACHLERH 99
>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small
GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga
maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A
Length = 258
Score = 27.6 bits (62), Expect = 4.2
Identities = 11/34 (32%), Positives = 15/34 (44%), Gaps = 3/34 (8%)
Query: 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGIISTST 86
G TV + + KG + L+DLPG S
Sbjct: 37 GVTVEKKEGVFTYKG---YTINLIDLPGTYSLGY 67
>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle,
G-protein, prokaryote, GTP-BIND nucleotide-binding,
metal transport; 2.70A {Pyrococcus furiosus}
Length = 271
Score = 27.3 bits (61), Expect = 6.1
Identities = 11/38 (28%), Positives = 19/38 (50%), Gaps = 5/38 (13%)
Query: 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGI--ISTSTQD 88
G TV + M + + ++VDLPGI ++ + D
Sbjct: 35 GVTVEKKEGIMEYRE---KEFLVVDLPGIYSLTAHSID 69
>3tr8_A Oligoribonuclease; transcription, hydrolase; 2.50A {Coxiella
burnetii}
Length = 186
Score = 27.1 bits (59), Expect = 6.2
Identities = 5/18 (27%), Positives = 11/18 (61%)
Query: 260 ESIQDIKEYEENFFKKSK 277
+SI++++ Y + SK
Sbjct: 169 DSIEELRYYRAHLLNLSK 186
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
0.315 0.131 0.354
Gapped
Lambda K H
0.267 0.0472 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,161,901
Number of extensions: 242396
Number of successful extensions: 538
Number of sequences better than 10.0: 1
Number of HSP's gapped: 533
Number of HSP's successfully gapped: 41
Length of query: 294
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 201
Effective length of database: 4,105,140
Effective search space: 825133140
Effective search space used: 825133140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (26.4 bits)