RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7219
(288 letters)
>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint
center for structural genomics, JCSG, protein structu
initiative, PSI; 2.10A {Thermotoga maritima} SCOP:
c.37.1.12
Length = 256
Score = 96.8 bits (242), Expect = 4e-24
Identities = 31/90 (34%), Positives = 46/90 (51%), Gaps = 4/90 (4%)
Query: 199 ERERVERGADSGDVLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTT 258
+++ +VVK L K K + ISF + GE FGL+G NGAGKTTT
Sbjct: 2 GSDKIHHHHHHMGAVVVKDLRKRI----GKKEILKGISFEIEEGEIFGLIGPNGAGKTTT 57
Query: 259 FKMLTGAIKPTSGNAYVMNHSIRDSMDLVR 288
++++ IKP+SG V ++ + VR
Sbjct: 58 LRIISTLIKPSSGIVTVFGKNVVEEPHEVR 87
>1sgw_A Putative ABC transporter; structural genomics, P protein structure
initiative, southeast collaboratory for S genomics,
secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12
Length = 214
Score = 95.3 bits (238), Expect = 9e-24
Identities = 20/74 (27%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 209 SGDVLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKP 268
G L ++ L Y KP + +I+ + +G G NG GKTT K ++ +KP
Sbjct: 7 HGSKLEIRDLSVGYD-----KPVLERITMTIEKGNVVNFHGPNGIGKTTLLKTISTYLKP 61
Query: 269 TSGNAYVMNHSIRD 282
G I
Sbjct: 62 LKGEIIYNGVPITK 75
>1g6h_A High-affinity branched-chain amino acid transport ATP-binding
protein; beta-core domain; HET: ADP; 1.60A
{Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB:
1gaj_A 1g9x_A*
Length = 257
Score = 69.5 bits (171), Expect = 5e-14
Identities = 17/50 (34%), Positives = 29/50 (58%)
Query: 231 AVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSI 280
A++ +S V +G+ ++G NG+GK+T ++TG +K G Y N I
Sbjct: 22 ALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDI 71
>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette,
hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}
Length = 279
Score = 69.5 bits (171), Expect = 6e-14
Identities = 19/71 (26%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 208 DSGDVLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIK 267
S ++ + ++ ++ K + +IS+ + +G+ + L GLNGAGKTT +L
Sbjct: 17 GSHMLIQLDQIGRMK----QGKTILKKISWQIAKGDKWILYGLNGAGKTTLLNILNAYEP 72
Query: 268 PTSGNAYVMNH 278
TSG +
Sbjct: 73 ATSGTVNLFGK 83
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 67.3 bits (165), Expect = 8e-13
Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 5/93 (5%)
Query: 179 FTRSNPHPVPVSLEEDDVRKERERVERGADSGDVLVVKRLFKIYANSKDTKPAVNQISFG 238
F R V +++ + + ++ RL K Y +
Sbjct: 254 FLRGYLKDENVRFRPYEIKFTKTGERVEIERETLVTYPRLVKDYG-----SFRLEVEPGE 308
Query: 239 VGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSG 271
+ +GE G++G NG GKTT KML G +PT G
Sbjct: 309 IKKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEG 341
Score = 46.1 bits (110), Expect = 7e-06
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 231 AVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKP 268
V V G G++G NG GK+T K+L G + P
Sbjct: 36 FVLYRLPVVKEGMVVGIVGPNGTGKSTAVKILAGQLIP 73
>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell
membrane, cobalt transport, hydrolase, ION transport;
2.30A {Clostridium perfringens atcc 13124}
Length = 275
Score = 64.1 bits (157), Expect = 4e-12
Identities = 26/72 (36%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 212 VLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSG 271
+L V+ L Y+ D A+ I+ + RGE +LG NG GK+T F+ G +KP+SG
Sbjct: 7 ILKVEELNYNYS---DGTHALKGINMNIKRGEVTAILGGNGVGKSTLFQNFNGILKPSSG 63
Query: 272 NAYVMNHSIRDS 283
N I S
Sbjct: 64 RILFDNKPIDYS 75
>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural
genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}
Length = 263
Score = 63.5 bits (155), Expect = 5e-12
Identities = 19/68 (27%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 215 VKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAY 274
+K + + + ++ I+ V GE +LG NG+GKTT + ++G + P SGN +
Sbjct: 4 LKNVGITLSGKGYERFSLENINLEV-NGEKVIILGPNGSGKTTLLRAISG-LLPYSGNIF 61
Query: 275 VMNHSIRD 282
+ +R
Sbjct: 62 INGMEVRK 69
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 62.7 bits (153), Expect = 3e-11
Identities = 24/103 (23%), Positives = 41/103 (39%), Gaps = 2/103 (1%)
Query: 179 FTRSNPHPVPVSLEEDDVRKERERVERGADSGDVLVVKRLFKIYANSKDTKPAVNQISFG 238
F + + + D+++ + V S D+ + KI D + V+ +
Sbjct: 233 FLKGYLPAENMKIRPDEIKFMLKEVSDLDLSKDLKTKMKWTKIIKKLGDFQLVVD--NGE 290
Query: 239 VGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIR 281
GE G+LG NG GKTT ++L G I G+ +
Sbjct: 291 AKEGEIIGILGPNGIGKTTFARILVGEITADEGSVTPEKQILS 333
Score = 48.9 bits (117), Expect = 1e-06
Identities = 15/43 (34%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 231 AVNQISFGVGR-GECFGLLGLNGAGKTTTFKMLTGAIKPTSGN 272
+ G+LG NG GKTT K+L G I P G+
Sbjct: 13 GFKLFGLPTPKNNTILGVLGKNGVGKTTVLKILAGEIIPNFGD 55
>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt
transport, TM02 hydrolase, inner membrane, membrane,
nucleotide-binding; 2.30A {Thermotoga maritima}
Length = 266
Score = 61.1 bits (149), Expect = 4e-11
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 3/71 (4%)
Query: 215 VKRLFKIY-ANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNA 273
V + I+ + K A+ +S + GEC + G G+GK+T +++ G I+PTSG+
Sbjct: 5 VVNVSHIFHRGTPLEKKALENVSLVINEGECLLVAGNTGSGKSTLLQIVAGLIEPTSGDV 64
Query: 274 YV--MNHSIRD 282
+
Sbjct: 65 LYDGERKKGYE 75
>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur
cluster, adenosine diphosphate, nucleotide-binding; HET:
ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*
Length = 607
Score = 61.9 bits (151), Expect = 5e-11
Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 5/93 (5%)
Query: 179 FTRSNPHPVPVSLEEDDVRKERERVERGADSGDVLVVKRLFKIYANSKDTKPAVNQISFG 238
F + V ++R + + ++ RL K Y +
Sbjct: 324 FLQGYLKDENVRFRPYEIRFTKLSERVDVERETLVEYPRLVKDY-----GSFKLEVEPGE 378
Query: 239 VGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSG 271
+ +GE G++G NG GKTT KML G +PT G
Sbjct: 379 IRKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEG 411
Score = 51.9 bits (125), Expect = 8e-08
Identities = 15/43 (34%), Positives = 19/43 (44%)
Query: 231 AVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNA 273
V V G G++G NG GKTT K+L G + P
Sbjct: 106 FVLYRLPIVKDGMVVGIVGPNGTGKTTAVKILAGQLIPNLCED 148
>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative
iron chelatin ABC transporter, nucleotide binding
domain; 2.40A {Haemophilus influenzae}
Length = 253
Score = 58.0 bits (141), Expect = 3e-10
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 10/71 (14%)
Query: 212 VLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSG 271
L V+ L Y Q++F + +G+ +LG NG GK+T +L G +P G
Sbjct: 4 ALSVENLGFYYQA---ENFLFQQLNFDLNKGDILAVLGQNGCGKSTLLDLLLGIHRPIQG 60
Query: 272 N-------AYV 275
+V
Sbjct: 61 KIEVYQSIGFV 71
>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga
maritima} SCOP: c.37.1.12
Length = 240
Score = 57.8 bits (141), Expect = 4e-10
Identities = 23/69 (33%), Positives = 30/69 (43%), Gaps = 4/69 (5%)
Query: 212 VLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSG 271
VL V+ L Y A+ I V RG+ L+G NGAGKTTT + G ++ G
Sbjct: 6 VLEVQSLHVYYGAIH----AIKGIDLKVPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKG 61
Query: 272 NAYVMNHSI 280
I
Sbjct: 62 KIIFNGQDI 70
>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I
ABC type importer, methionine uptake transporter,
membrane protein; HET: ADP; 2.90A {Escherichia coli}
PDB: 3tuj_C 3tuz_C* 3dhw_C
Length = 366
Score = 58.5 bits (142), Expect = 5e-10
Identities = 19/84 (22%), Positives = 38/84 (45%)
Query: 197 RKERERVERGADSGDVLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKT 256
D ++ + + K++ T A+N +S V G+ +G++G +GAGK+
Sbjct: 9 HHHHSSGHIDDDDKHMIKLSNITKVFHQGTRTIQALNNVSLHVPAGQIYGVIGASGAGKS 68
Query: 257 TTFKMLTGAIKPTSGNAYVMNHSI 280
T + + +PT G+ V +
Sbjct: 69 TLIRCVNLLERPTEGSVLVDGQEL 92
>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET:
ATP; NMR {Saccharomyces cerevisiae}
Length = 608
Score = 58.5 bits (142), Expect = 7e-10
Identities = 21/87 (24%), Positives = 28/87 (32%), Gaps = 4/87 (4%)
Query: 185 HPVPVSLEEDDVRKERERVERGADSGDVLVVKRLFKIYANSKDTKPAVNQISFGVGRGEC 244
+ E R + DS K +N E
Sbjct: 325 ENLRFRTEALQFRIADATEDLQNDSASRAFSYPSLKKTQG----DFVLNVEEGEFSDSEI 380
Query: 245 FGLLGLNGAGKTTTFKMLTGAIKPTSG 271
++G NG GKTT K+L GA+KP G
Sbjct: 381 LVMMGENGTGKTTLIKLLAGALKPDEG 407
Score = 48.9 bits (117), Expect = 8e-07
Identities = 15/43 (34%), Positives = 19/43 (44%)
Query: 230 PAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGN 272
G+ GL+G NG GK+T K+L G KP G
Sbjct: 91 SFKLHRLPTPRPGQVLGLVGTNGIGKSTALKILAGKQKPNLGR 133
>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein
biosynthesis, nucleotide-binding, phosphorylation, RNA-
binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces
cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A
Length = 986
Score = 58.5 bits (141), Expect = 7e-10
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 192 EEDDVRKERERVERGADSGDVLVVKRLFKIYANSK----DTKPAVNQISFGVGRGECFGL 247
E + E + E G G K + K+ +KP + I+F +
Sbjct: 645 ELSNTDLEFKFPEPGYLEGVKTKQKAIVKVTNMEFQYPGTSKPQITDINFQCSLSSRIAV 704
Query: 248 LGLNGAGKTTTFKMLTGAIKPTSGN 272
+G NGAGK+T +LTG + PTSG
Sbjct: 705 IGPNGAGKSTLINVLTGELLPTSGE 729
Score = 47.0 bits (111), Expect = 5e-06
Identities = 10/37 (27%), Positives = 18/37 (48%)
Query: 229 KPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGA 265
K +N+ + R +G+ G NG GK+T + +
Sbjct: 448 KILLNKTQLRLKRARRYGICGPNGCGKSTLMRAIANG 484
>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein;
ATP-binding, nucleotide-binding, membrane,
transmembrane, transport protein; 3.00A {Methanosarcina
acetivorans} SCOP: b.40.6.3 c.37.1.12
Length = 348
Score = 52.9 bits (128), Expect = 3e-08
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 212 VLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSG 271
++ ++ L + + N +++ +S V GE F +LG GAGKT +++ G P SG
Sbjct: 1 MIEIESLSRKWKN-----FSLDNLSLKVESGEYFVILGPTGAGKTLFLELIAGFHVPDSG 55
>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding
domain, ABC motor domain, ferric iron transport, cell
inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}
Length = 359
Score = 52.6 bits (127), Expect = 5e-08
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 213 LVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSG 271
L + L K + P +N IS + GE ++G +G GKTT + L G +P SG
Sbjct: 5 LHIGHLSKSF----QNTPVLNDISLSLDPGEILFIIGASGCGKTTLLRCLAGFEQPDSG 59
>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane,
membrane, transmembrane, transport, ATP- binding,
hydrolase, nucleotide-binding, periplasm; HET: 1PE;
2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C
Length = 249
Score = 51.4 bits (124), Expect = 6e-08
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 229 KPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
+ +S V GE L+G NGAGK+T + G + G+ +
Sbjct: 13 STRLGPLSGEVRAGEILHLVGPNGAGKSTLLARMAG-MTSGKGSIQFAGQPLEA 65
>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta
motif, beta sandwich, ligand binding protein; 1.90A
{Alicyclobacillus acidocaldarius}
Length = 355
Score = 50.7 bits (122), Expect = 2e-07
Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 209 SGDVLV-VKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIK 267
G + + + KIY +V +SF + GE GLLG +G+GKTT +++ G +
Sbjct: 10 HGSMTIEFVGVEKIY---PGGARSVRGVSFQIREGEMVGLLGPSGSGKTTILRLIAGLER 66
Query: 268 PTSG 271
PT G
Sbjct: 67 PTKG 70
>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase,
ATP-binding cassette, ATPase, transport protein; 1.45A
{Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB:
1oxs_C 1oxt_A 1oxu_A* 1oxv_A*
Length = 353
Score = 48.4 bits (116), Expect = 1e-06
Identities = 21/77 (27%), Positives = 43/77 (55%), Gaps = 6/77 (7%)
Query: 213 LVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGN 272
++VK + K++ K A++ ++ + GE FG+LG +GAGKTT +++ G P++G
Sbjct: 4 IIVKNVSKVFKKGK--VVALDNVNINIENGERFGILGPSGAGKTTFMRIIAGLDVPSTGE 61
Query: 273 AY----VMNHSIRDSMD 285
Y ++ + + +
Sbjct: 62 LYFDDRLVASNGKLIVP 78
>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding
cassette, transport protein; HET: ATP; 2.05A {Homo
sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A*
1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A*
1xfa_A*
Length = 290
Score = 44.3 bits (105), Expect = 2e-05
Identities = 22/113 (19%), Positives = 45/113 (39%), Gaps = 19/113 (16%)
Query: 189 VSLE------EDDVRKERERVERGADSGDVLVVKRLFKIYANSKDTKPAVNQISFGVGRG 242
V +E E+ + E+ ++ ++ S P + I+F + RG
Sbjct: 5 VVMENVTAFWEEGFGELFEKAKQNNNNRKTSNGDDSLSFSNFSLLGTPVLKDINFKIERG 64
Query: 243 ECFGLLGLNGAGKTTTFKMLTGAIKPTSGN-------AYV------MNHSIRD 282
+ + G GAGKT+ M+ G ++P+ G ++ M +I++
Sbjct: 65 QLLAVAGSTGAGKTSLLMMIMGELEPSEGKIKHSGRISFCSQNSWIMPGTIKE 117
>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane
protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12
Length = 240
Score = 41.4 bits (98), Expect = 1e-04
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 235 ISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYV 275
+ F +G + LLG GAGK+ +++ G +KP G +
Sbjct: 18 VDFEMG-RDYCVLLGPTGAGKSVFLELIAGIVKPDRGEVRL 57
>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; HET: ANP; 3.70A {Salmonella
typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A*
3b5z_A* 3b5w_A
Length = 582
Score = 40.3 bits (95), Expect = 6e-04
Identities = 14/56 (25%), Positives = 28/56 (50%)
Query: 227 DTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
PA+ I+ + G+ L+G +G+GK+T ++T G+ + H +R+
Sbjct: 354 REVPALRNINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGHILMDGHDLRE 409
>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC
transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo
sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A
1ckz_A
Length = 229
Score = 39.1 bits (92), Expect = 8e-04
Identities = 17/71 (23%), Positives = 33/71 (46%), Gaps = 13/71 (18%)
Query: 225 SKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGN-------AYV-- 275
+ P + I+F + RG+ + G GAGKT+ M+ G ++P+ G ++
Sbjct: 17 EEGGTPVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGELEPSEGKIKHSGRISFCSQ 76
Query: 276 ----MNHSIRD 282
M +I++
Sbjct: 77 FSWIMPGTIKE 87
>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; 5.50A {Vibrio cholerae}
Length = 582
Score = 39.9 bits (94), Expect = 8e-04
Identities = 18/56 (32%), Positives = 32/56 (57%)
Query: 227 DTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
KPA++ +SF + +G+ L+G +G+GK+T + T SG+ + H +RD
Sbjct: 354 KEKPALSHVSFSIPQGKTVALVGRSGSGKSTIANLFTRFYDVDSGSICLDGHDVRD 409
>2cbz_A Multidrug resistance-associated protein 1; ABC proteins,
MRP1/ABCC1, nucleotide-binding domain, ATP- binding,
hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}
Length = 237
Score = 38.7 bits (91), Expect = 0.001
Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 13/71 (18%)
Query: 225 SKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGN-------AYV-- 275
++ P +N I+F + G ++G G GK++ L + G+ AYV
Sbjct: 14 ARSDPPTLNGITFSIPEGALVAVVGQVGCGKSSLLSALLAEMDKVEGHVAIKGSVAYVPQ 73
Query: 276 ----MNHSIRD 282
N S+R+
Sbjct: 74 QAWIQNDSLRE 84
>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter,
ABCB6, nucleotide binding domain, heme BIOS transport
protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A*
3nhb_A*
Length = 306
Score = 39.1 bits (92), Expect = 0.001
Identities = 16/56 (28%), Positives = 27/56 (48%)
Query: 227 DTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
D + + +SF V G+ L+G +GAGK+T ++L +SG + I
Sbjct: 65 DGRETLQDVSFTVMPGQTLALVGPSGAGKSTILRLLFRFYDISSGCIRIDGQDISQ 120
>3tif_A Uncharacterized ABC transporter ATP-binding prote;
nucleotide-binding domain, ABC transporter ATPase; HET:
ADP; 1.80A {Methanocaldococcus jannaschii dsm
2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*
Length = 235
Score = 38.7 bits (91), Expect = 0.001
Identities = 19/72 (26%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 212 VLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAI-KPTS 270
++ +K + K Y ++ A+ ++ + GE ++G +G+GK+T ++ G + KPT
Sbjct: 1 MVKLKNVTKTYKMGEEIIYALKNVNLNIKEGEFVSIMGPSGSGKSTMLNII-GCLDKPTE 59
Query: 271 GNAYVMNHSIRD 282
G Y+ N D
Sbjct: 60 GEVYIDNIKTND 71
>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease
protein; asymmetric dimer, tetramer, P-glycoprotein;
HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12
Length = 243
Score = 38.2 bits (90), Expect = 0.001
Identities = 15/56 (26%), Positives = 25/56 (44%)
Query: 227 DTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
D++ + ISF G +G GK+T F +L +PT+G + I +
Sbjct: 13 DSEQILRDISFEAQPNSIIAFAGPSGGGKSTIFSLLERFYQPTAGEITIDGQPIDN 68
>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding
protein; structural genomics, NPPSFA; 1.94A {Pyrococcus
horikoshii}
Length = 362
Score = 38.7 bits (91), Expect = 0.002
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 8/70 (11%)
Query: 213 LVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGN 272
+ ++ + K + N A+N I+ + GE LLG +G+GK+T + G KPTSG
Sbjct: 4 IKLENIVKKFGNF----TALNNINLKIKDGEFMALLGPSGSGKSTLLYTIAGIYKPTSGK 59
Query: 273 AY----VMNH 278
Y +
Sbjct: 60 IYFDEKDVTE 69
>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 = 36.9 bits (84), Expect = 0.002
Identities = 8/24 (33%), Positives = 13/24 (54%), Gaps = 7/24 (29%)
Query: 215 VKRL---FKIYANSKDTKP--AVN 233
+K+L K+YA D+ P A+
Sbjct: 22 LKKLQASLKLYA--DDSAPALAIK 43
Score = 31.5 bits (70), Expect = 0.15
Identities = 5/26 (19%), Positives = 10/26 (38%), Gaps = 3/26 (11%)
Query: 258 TFKMLTGAIK---PTSGNAYVMNHSI 280
K L ++K S A + ++
Sbjct: 21 ALKKLQASLKLYADDSAPALAIKATM 46
>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB;
ABC-transporter, transport protein; HET: ADP; 1.60A
{Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A*
2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*
Length = 247
Score = 37.1 bits (87), Expect = 0.004
Identities = 14/56 (25%), Positives = 30/56 (53%)
Query: 227 DTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
D+ ++ I+ + +GE G++G +G+GK+T K++ P +G + H +
Sbjct: 20 DSPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFYIPENGQVLIDGHDLAL 75
>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 = 0.004
Identities = 30/151 (19%), Positives = 48/151 (31%), Gaps = 55/151 (36%)
Query: 107 LIFPHFCLGEGLMKLANTYWTSSFANSYGTRLVAVNIWAWRMIGKN-----LTCMACHGA 161
F +GL+ T +T A L + A+ + A H +
Sbjct: 1717 YTFRS---EKGLLSA--TQFTQP-A------LTLMEKAAFEDLKSKGLIPADATFAGH-S 1763
Query: 162 L--YSAIN-----LSIE---YKVFSR------CFTRS------------NPHPVPVSLEE 193
L Y+A+ +SIE VF R R NP V S +
Sbjct: 1764 LGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQ 1823
Query: 194 DDVRKERERVERGADSGDVLVVKRLFKIYAN 224
+ ++ ERV G +G ++ + N
Sbjct: 1824 EALQYVVERV--GKRTGWLVEI-------VN 1845
Score = 36.6 bits (84), Expect = 0.010
Identities = 39/238 (16%), Positives = 79/238 (33%), Gaps = 50/238 (21%)
Query: 20 FLAFKEEAYISPQNLP--GLVALLLCYGCAVIPLMYPCSFIFSVPSTAFVVLGCFNLFVG 77
+L IS P G++ L Y L + + S A G G
Sbjct: 230 YLL---SIPIS---CPLIGVIQLA-HYVVTAKLLGFTPGELRSYLKGA---TGHSQ---G 276
Query: 78 LITTLTVTVLDNLQDDTLEYVNQYLKVIFLI-------FPHFCLGEGLMKLANTYWTSSF 130
L+T + + D+ + V + + V+F I +P+ L +++ S
Sbjct: 277 LVTAVAIAETDSW-ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE-------DSL 328
Query: 131 ANSYG--TRLVAVNIWAWRMIGKNLTCMACHGALYSAINLSIEYKVF--SRCFTRSNPHP 186
N+ G + +++++ + + H + +S + ++ S P
Sbjct: 329 ENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS----LVNGAKNLVVSGP-- 382
Query: 187 VPVSLEEDDVRKERERVERGADSGDVLVVKRLFKIYA---------NSKDTKPAVNQI 235
P SL ++ + + G D + +R K +S PA + I
Sbjct: 383 -PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLI 439
Score = 31.9 bits (72), Expect = 0.31
Identities = 31/184 (16%), Positives = 50/184 (27%), Gaps = 61/184 (33%)
Query: 134 YGTRLVAVNIWAWRMIGKNLTCMACHGALYSAINLSIEYKVFSRCFTRSNPHPVPVSLEE 193
Y T A ++W SI V +NP + +
Sbjct: 1636 YKTSKAAQDVWN-----------RADNHFKDTYGFSILDIV------INNPVNLTIHFGG 1678
Query: 194 DDVRKERER-----VERGADSGDVLVVKRLFKIYANSKDTKPAVNQISFGVGRGECF--- 245
+ ++ RE E D L +++FK N T +F +G
Sbjct: 1679 EKGKRIRENYSAMIFETIVDGK--LKTEKIFK-EINEHSTS-----YTFRSEKGLLSATQ 1730
Query: 246 ----GLLGLNGAGKTTTFKML--TGAIKPTSGNAYVMNHS---------------IRDSM 284
L + A F+ L G I +A HS I +
Sbjct: 1731 FTQPALTLMEKA----AFEDLKSKGLIPA---DATFAGHSLGEYAALASLADVMSIESLV 1783
Query: 285 DLVR 288
++V
Sbjct: 1784 EVVF 1787
>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport,
maltose uptake and regulation, sugar binding protein;
1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3
c.37.1.12 PDB: 2d62_A
Length = 372
Score = 37.2 bits (87), Expect = 0.004
Identities = 21/71 (29%), Positives = 36/71 (50%), Gaps = 8/71 (11%)
Query: 213 LVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGN 272
+ + ++K++ AV ++S V GE LLG +G GKTTT +M+ G +P+ G
Sbjct: 4 VRLVDVWKVFGE----VTAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQ 59
Query: 273 AY----VMNHS 279
Y ++
Sbjct: 60 IYIGDKLVADP 70
>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter,
transport protein; HET: ANP; 2.90A {Thermotoga maritima}
Length = 587
Score = 37.2 bits (87), Expect = 0.006
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 225 SKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
++T P ++ ++F V G +LG G+GK+T ++ I P G V +R
Sbjct: 352 FENTDPVLSGVNFSVKPGSLVAVLGETGSGKSTLMNLIPRLIDPERGRVEVDELDVRT 409
>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active
transport, sugar uptake and regulation, transport
protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3
b.40.6.3 c.37.1.12 PDB: 1vci_A*
Length = 372
Score = 36.4 bits (85), Expect = 0.007
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 8/70 (11%)
Query: 213 LVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGN 272
+ ++ L K + N AVN+++ + GE LLG +G GKTTT +M+ G +PT G
Sbjct: 12 VKLENLTKRFGNF----TAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEGR 67
Query: 273 AY----VMNH 278
Y + +
Sbjct: 68 IYFGDRDVTY 77
>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein;
structural genomics; 1.70A {Aquifex aeolicus} PDB:
2pcl_A
Length = 224
Score = 35.9 bits (84), Expect = 0.007
Identities = 16/72 (22%), Positives = 32/72 (44%), Gaps = 4/72 (5%)
Query: 211 DVLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTS 270
++L + + K+ + IS V +GE ++G +G+GK+T +L PT
Sbjct: 3 EILRAENIKKVI----RGYEILKGISLSVKKGEFVSIIGASGSGKSTLLYILGLLDAPTE 58
Query: 271 GNAYVMNHSIRD 282
G ++ +
Sbjct: 59 GKVFLEGKEVDY 70
>2ghi_A Transport protein; multidrug resistance protein, MDR, structural
genomics, structural genomics consortium, SGC; 2.20A
{Plasmodium yoelii yoelii str}
Length = 260
Score = 36.0 bits (84), Expect = 0.008
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 6/50 (12%)
Query: 224 NSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKML------TGAIK 267
+ + I+F + G L+G G+GK+T K+L G IK
Sbjct: 28 PKQTNHRTLKSINFFIPSGTTCALVGHTGSGKSTIAKLLYRFYDAEGDIK 77
>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION
channel, transport protein, casse protein; 2.00A {Homo
sapiens} PDB: 2onj_A* 2hyd_A
Length = 578
Score = 36.4 bits (85), Expect = 0.009
Identities = 15/58 (25%), Positives = 30/58 (51%)
Query: 225 SKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
+ + P + I+ + +GE +G++G GK+T ++ TSG + H+I+D
Sbjct: 350 NDNEAPILKDINLSIEKGETVAFVGMSGGGKSTLINLIPRFYDVTSGQILIDGHNIKD 407
>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein
transport, G protein, proline isomerization, circular
permutation; 2.20A {Saccharomyces cerevisiae}
Length = 193
Score = 35.1 bits (81), Expect = 0.012
Identities = 6/30 (20%), Positives = 11/30 (36%), Gaps = 4/30 (13%)
Query: 247 LLGLNGAGKTTTFKMLTG----AIKPTSGN 272
+ G +GKT+ +LT +
Sbjct: 53 IAGPQNSGKTSLLTLLTTDSVRPTVVSQEP 82
>1nrj_B SR-beta, signal recognition particle receptor beta subunit;
transmembrane, endoplasmic reticulum, GTP-binding; HET:
GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8
Length = 218
Score = 34.7 bits (80), Expect = 0.017
Identities = 8/24 (33%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 247 LLGLNGAGKTTTFKMLT-GAIKPT 269
+ G +GKT+ +LT +++PT
Sbjct: 17 IAGPQNSGKTSLLTLLTTDSVRPT 40
>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha
and beta proteins (A/B) TM0421, structural genomics,
NPPSFA; 2.11A {Thermotoga maritima}
Length = 359
Score = 34.1 bits (79), Expect = 0.045
Identities = 30/70 (42%), Positives = 37/70 (52%), Gaps = 8/70 (11%)
Query: 213 LVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGN 272
+ V L K + K AV+ +SF V GE LLG +G GKTTT ML G KPTSG
Sbjct: 4 IRVVNLKKYFGKVK----AVDGVSFEVKDGEFVALLGPSGCGKTTTLLMLAGIYKPTSGE 59
Query: 273 AY----VMNH 278
Y ++N
Sbjct: 60 IYFDDVLVND 69
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 33.2 bits (76), Expect = 0.060
Identities = 10/25 (40%), Positives = 13/25 (52%), Gaps = 1/25 (4%)
Query: 247 LLGLNGAGKTTTFKML-TGAIKPTS 270
+GL +GKT F L TG + T
Sbjct: 12 FVGLCDSGKTLLFVRLLTGQYRDTQ 36
>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP;
2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*
Length = 271
Score = 32.9 bits (76), Expect = 0.084
Identities = 13/53 (24%), Positives = 25/53 (47%)
Query: 230 PAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
+ ++F + G+ L+G NG+GK+T +L +PT G + +
Sbjct: 33 QVLQGLTFTLYPGKVTALVGPNGSGKSTVAALLQNLYQPTGGKVLLDGEPLVQ 85
>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP,
cyclic peptide, membrane protein; 3.80A {Mus musculus}
PDB: 3g61_A* 3g60_A*
Length = 1284
Score = 33.1 bits (76), Expect = 0.12
Identities = 14/58 (24%), Positives = 26/58 (44%)
Query: 225 SKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
S+ + ++ V G+ L+G +G GK+TT +++ P G + IR
Sbjct: 399 SRKEVQILKGLNLKVKSGQTVALVGNSGCGKSTTVQLMQRLYDPLDGMVSIDGQDIRT 456
Score = 33.1 bits (76), Expect = 0.12
Identities = 14/53 (26%), Positives = 28/53 (52%)
Query: 230 PAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
P + +S V +G+ L+G +G GK+T ++L P +G+ ++ I+
Sbjct: 1047 PVLQGLSLEVKKGQTLALVGSSGCGKSTVVQLLERFYDPMAGSVFLDGKEIKQ 1099
>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein
transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A
Length = 320
Score = 32.2 bits (74), Expect = 0.15
Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 3/61 (4%)
Query: 200 RERVERGADSGDV--LVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTT 257
R++ +R ++ +V+ L++ Y ++ D +I F R F L+G+NG GKTT
Sbjct: 62 RKKTKRDTSFENIKDALVESLYQAYTDN-DWTNKKYRIDFKENRLNIFMLVGVNGTGKTT 120
Query: 258 T 258
+
Sbjct: 121 S 121
>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein
transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP:
c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*
Length = 198
Score = 30.7 bits (70), Expect = 0.36
Identities = 13/29 (44%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTTFKML----TGAIKPTSG 271
LGL+ AGKTT ML G PT
Sbjct: 30 FLGLDNAGKTTLLHMLKDDRLGQHVPTLH 58
>2yl4_A ATP-binding cassette SUB-family B member 10, mitochondrial;
membrane protein, mitochondrial transport; HET: ACP LMT
CDL 14Y; 2.85A {Homo sapiens} PDB: 4aa3_A*
Length = 595
Score = 31.0 bits (71), Expect = 0.43
Identities = 16/53 (30%), Positives = 23/53 (43%)
Query: 230 PAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
P S + G L+G +G+GK+T +L P SG + H IR
Sbjct: 358 PIFQDFSLSIPSGSVTALVGPSGSGKSTVLSLLLRLYDPASGTISLDGHDIRQ 410
>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GDP; 1.70A {Homo sapiens} PDB:
2h16_A* 1z6y_A* 1yzg_A*
Length = 181
Score = 30.3 bits (69), Expect = 0.44
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTTFKMLTG----AIKPTSG 271
++GL+ AGKTT + PT G
Sbjct: 26 IVGLDNAGKTTILYQFSMNEVVHTSPTIG 54
>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta
barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A
{Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*
Length = 190
Score = 30.2 bits (69), Expect = 0.46
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTTFKMLTG----AIKPTSG 271
LGL+ AGKTT ML ++PT
Sbjct: 28 FLGLDNAGKTTLLHMLKNDRLATLQPTWH 56
>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without
magnesium, ARF family, RAS superfamily, G-domain,
signaling protein; HET: MES GDP; 1.70A {Mus musculus}
SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*
Length = 181
Score = 30.2 bits (69), Expect = 0.46
Identities = 15/29 (51%), Positives = 16/29 (55%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTTFKMLTG----AIKPTSG 271
LLGL+ AGKTT K L I PT G
Sbjct: 21 LLGLDNAGKTTLLKQLASEDISHITPTQG 49
>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF
family; HET: CME GDP; 1.80A {Mus musculus} SCOP:
c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*
Length = 186
Score = 30.3 bits (69), Expect = 0.52
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTTFKMLTG----AIKPTSG 271
+LGL+ AGKTT K G I PT G
Sbjct: 23 MLGLDNAGKTTILKKFNGEDVDTISPTLG 51
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 31.0 bits (70), Expect = 0.57
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 247 LLGLNGAGKTTTFKMLTGAIKPTSGN---AYVMN 277
L+G G GKT T+K + A+ G+ YV++
Sbjct: 928 LVGKAGCGKTATWKTVIDAMAIFDGHANVVYVID 961
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A* 3syn_A*
Length = 296
Score = 30.4 bits (69), Expect = 0.57
Identities = 9/12 (75%), Positives = 9/12 (75%)
Query: 247 LLGLNGAGKTTT 258
L G GAGKTTT
Sbjct: 110 LFGSTGAGKTTT 121
>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase,
protein-targeting, transport protein; HET: GDP; 1.97A
{Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*
Length = 328
Score = 30.3 bits (69), Expect = 0.59
Identities = 14/69 (20%), Positives = 35/69 (50%), Gaps = 5/69 (7%)
Query: 194 DDVRKE--RERVERGADSGDVLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLL--G 249
+ ++++ ++V G D G ++ + + + + +T ++ I + + ++ G
Sbjct: 78 EKIKQKLVGKKVRIGTDKGKIIE-EAVKEAVSEILETSRRIDLIEEIRKAEKPYVIMFVG 136
Query: 250 LNGAGKTTT 258
NG+GKTTT
Sbjct: 137 FNGSGKTTT 145
>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, binding; 1.70A {Thermus thermophilus} PDB:
2d2f_A*
Length = 250
Score = 30.2 bits (69), Expect = 0.66
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 6/60 (10%)
Query: 227 DTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKP----TSGNAYVMNHSIRD 282
D + + ++ V +GE L+G NGAGK+T K+L G P G + +I +
Sbjct: 14 DGETILKGVNLVVPKGEVHALMGPNGAGKSTLGKILAG--DPEYTVERGEILLDGENILE 71
>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor,
protein transport-exchang complex; HET: GDP; 1.46A {Bos
taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A*
1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A*
1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A*
2a5f_A* 2j5x_A* 1e0s_A* ...
Length = 164
Score = 29.5 bits (67), Expect = 0.76
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTT-FKMLTG---AIKPTSG 271
++GL+ AGKTT +K+ G PT G
Sbjct: 5 MVGLDAAGKTTILYKLKLGEIVTTIPTIG 33
>1upt_A ARL1, ADP-ribosylation factor-like protein 1;
hydrolase/protein-binding, complex (GTPase/golgin),
golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP;
1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*
Length = 171
Score = 29.5 bits (67), Expect = 0.81
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTT-FKMLTGAIK---PTSG 271
+LGL+GAGKTT +++ G + PT G
Sbjct: 12 ILGLDGAGKTTILYRLQVGEVVTTIPTIG 40
>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting,
simibi class GTPase, GTP-BIND membrane,
nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A
2xxa_B* 1fts_A
Length = 503
Score = 30.1 bits (68), Expect = 0.82
Identities = 8/10 (80%), Positives = 9/10 (90%)
Query: 249 GLNGAGKTTT 258
G+NG GKTTT
Sbjct: 300 GVNGVGKTTT 309
>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport
protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8
Length = 187
Score = 29.5 bits (67), Expect = 0.85
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTTFKMLTG----AIKPTSG 271
++GL+ AGKTT + PT G
Sbjct: 21 IVGLDNAGKTTILYQFSMNEVVHTSPTIG 49
>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster,
ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding;
HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A
Length = 267
Score = 29.8 bits (68), Expect = 0.87
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 6/60 (10%)
Query: 227 DTKPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKP----TSGNAYVMNHSIRD 282
+ K + +S V GE ++G NG+GK+T L G + T G +
Sbjct: 31 EDKAILRGLSLDVHPGEVHAIMGPNGSGKSTLSATLAG--REDYEVTGGTVEFKGKDLLA 88
>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural
genomics, structural G consortium, SGC, protein
transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8
PDB: 1z6x_A* 3aq4_A*
Length = 192
Score = 29.6 bits (67), Expect = 0.88
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTT-FKMLTG---AIKPTSG 271
++GL+ AGKTT +K+ G PT G
Sbjct: 34 MVGLDAAGKTTILYKLKLGEIVTTIPTIG 62
>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase,
nucleotide-binding; HET: GDP; 2.10A {Leishmania major}
Length = 189
Score = 29.5 bits (67), Expect = 0.92
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTTFKMLTG----AIKPTSG 271
+LGL+ AGKT+ L PT G
Sbjct: 27 MLGLDNAGKTSILYRLHLGDVVTTVPTVG 55
>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein
binding; HET: GDP; 3.17A {Saccharomyces cerevisiae}
SCOP: c.37.1.8
Length = 183
Score = 29.1 bits (66), Expect = 1.0
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 4/29 (13%)
Query: 247 LLGLNGAGKTTT-FKMLTG---AIKPTSG 271
+LGL+GAGKTT +++ G KPT G
Sbjct: 23 ILGLDGAGKTTILYRLQIGEVVTTKPTIG 51
>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 = 29.8 bits (66), Expect = 1.3
Identities = 17/123 (13%), Positives = 29/123 (23%), Gaps = 20/123 (16%)
Query: 78 LITTLTVTVLDNLQDDTLEYVNQYLKVIFLIFPH--FCLGEGLMKLANTYWTSSFANSYG 135
L+TT V D L I L E L +
Sbjct: 269 LLTTRFKQVTDFL-------SAATTTHISLDHHSMTLTPDEVKSLLLK--YLDCRPQDLP 319
Query: 136 TRLVAVNIWAWRMIGKNLTCMACHGALYSAINLSIEYKVFSRCFTRSNPHPVPVSLEEDD 195
++ N +I +++ + +N + LE +
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN---------VLEPAE 370
Query: 196 VRK 198
RK
Sbjct: 371 YRK 373
Score = 29.1 bits (64), Expect = 2.0
Identities = 24/152 (15%), Positives = 48/152 (31%), Gaps = 34/152 (22%)
Query: 135 GTRLVAVNIWAWRMIGKNLTCMACHGALYSAINLSIEYK-VFSRCFTRSNPHPVPVSLEE 193
GT + W + + L I YK + S T P S+
Sbjct: 63 GTLRL---FWTLLSKQEEMVQKFVEEVL------RINYKFLMSPIKTEQR-QP---SMMT 109
Query: 194 DDVRKERERVERGADSGDVLVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGA 253
++R+R+ V RL + A+ ++ + + G+ G+
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPY----LKLRQALLELR----PAKNVLIDGVLGS 161
Query: 254 GKTTTFKMLTGAIKPTSGNAYVMNHSIRDSMD 285
GKT + + +++ ++ MD
Sbjct: 162 GKTW----VALDV--------CLSYKVQCKMD 181
>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP;
1.50A {Salmonella typhimurium} SCOP: c.37.1.12
Length = 262
Score = 29.1 bits (66), Expect = 1.5
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 235 ISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRDSMD 285
+S G+ ++G +G+GK+T + + KP+ G V +I D
Sbjct: 25 VSLQARAGDVISIIGSSGSGKSTFLRCINFLEKPSEGAIIVNGQNINLVRD 75
>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GTP; 2.00A {Homo sapiens}
Length = 190
Score = 28.8 bits (65), Expect = 1.5
Identities = 12/31 (38%), Positives = 15/31 (48%), Gaps = 6/31 (19%)
Query: 247 LLGLNGAGKTTT-FKMLTG-----AIKPTSG 271
LGL+ +GKTT K+ I PT G
Sbjct: 26 CLGLDNSGKTTIINKLKPSNAQSQNILPTIG 56
>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding,
signal recognition particle, GTP-binding, RNA-binding;
2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B
Length = 432
Score = 29.0 bits (66), Expect = 1.8
Identities = 8/12 (66%), Positives = 11/12 (91%)
Query: 247 LLGLNGAGKTTT 258
L+G+ G+GKTTT
Sbjct: 104 LVGIQGSGKTTT 115
>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition
particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A
{Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A
Length = 433
Score = 29.1 bits (66), Expect = 1.8
Identities = 8/12 (66%), Positives = 11/12 (91%)
Query: 247 LLGLNGAGKTTT 258
L+G+ G+GKTTT
Sbjct: 102 LVGVQGSGKTTT 113
>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M
domain, RNA-binding, signal sequence-binding,
helix-turn-helix, protein targeting; 3.20A {Thermus
aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB:
2iy3_A
Length = 425
Score = 29.0 bits (66), Expect = 1.9
Identities = 9/12 (75%), Positives = 11/12 (91%)
Query: 247 LLGLNGAGKTTT 258
L+GL G+GKTTT
Sbjct: 103 LVGLQGSGKTTT 114
>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal
recognition particle, SRP-GTPase, protein targeting,
cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus
furiosus}
Length = 443
Score = 29.1 bits (66), Expect = 1.9
Identities = 7/12 (58%), Positives = 11/12 (91%)
Query: 247 LLGLNGAGKTTT 258
++G+ G+GKTTT
Sbjct: 105 MVGIQGSGKTTT 116
>1cno_A Cytochrome C552; electron transport, pseudomonas nautica, X RAY
structure, multiwavelength anomalous dispersion, heme;
HET: HEC; 2.20A {Marinobacter hydrocarbonoclasticus}
SCOP: a.3.1.1
Length = 87
Score = 27.2 bits (61), Expect = 2.0
Identities = 7/14 (50%), Positives = 7/14 (50%), Gaps = 2/14 (14%)
Query: 150 GKNL--TCMACHGA 161
GK C ACHG
Sbjct: 7 GKAKAAVCAACHGQ 20
>3ouq_A Cytochrome C family protein; multiheme cytochrome C, electron
transfer, Fe reduction, GEO sulfurreducens, cytochrome
C7 (C3) fold; HET: HEM; 2.60A {Geobacter sulfurreducens}
Length = 161
Score = 28.5 bits (62), Expect = 2.0
Identities = 8/48 (16%), Positives = 13/48 (27%), Gaps = 2/48 (4%)
Query: 149 IGKNLTCMACHGALYSAINLSIEYKVFSRCFTRSNPHPVPVSLEEDDV 196
+ K +C ACH + RC + S +
Sbjct: 52 MEKGKSCGACHTG--MKAFSVADDSQCVRCHSGSARPVAYRMKGAGEA 97
>3ucp_A UNDA; beta-barrel, C-type cytochrome, electron transport, C-type H
cell surface, transport protein; HET: HEC; 1.76A
{Shewanella SP} PDB: 3ufh_A* 3ufk_A*
Length = 874
Score = 29.3 bits (63), Expect = 2.0
Identities = 28/165 (16%), Positives = 43/165 (26%), Gaps = 14/165 (8%)
Query: 122 ANTYWTSSFANSYGTRLVAVNIWAWRMIGKNLTCMACHGALYSAINLSIE----YKVFSR 177
A Y +N A N+ A ++ C CHG K +
Sbjct: 621 APIYEVIVGSNKASFSADASNVTARSIVISEAKCANCHGEKADFSASHALTHAADKPDNS 680
Query: 178 CFTRSNPHPVPVSLEEDDVR----KERERVERGADSGDVLVVKRLFKIYANSKDTKPAVN 233
C T + P D + + +I+A+++ +
Sbjct: 681 CGTCHSAVPNTAVALADGSCVACHNGAPAHSKKPFERGFDFKVMIHQIHADTRSVRRLTT 740
Query: 234 Q-ISFGVGRGECF-----GLLGLNGAGKTTTFKMLTGAIKPTSGN 272
+F C G L L G F TG PT
Sbjct: 741 DAATFPENPANCAACHDKGQLSLATLGNKPAFLASTGEYSPTVAA 785
>2og2_A Putative signal recognition particle receptor; nucleotide-binding,
protein transport; 2.00A {Arabidopsis thaliana}
Length = 359
Score = 28.8 bits (65), Expect = 2.0
Identities = 11/65 (16%), Positives = 27/65 (41%), Gaps = 12/65 (18%)
Query: 200 RERVERG--ADSGDV--LVVKRLFKIYANSKDTKPAVNQISFGVGRGECFGLL--GLNGA 253
RE + G ++ + + + ++ ++ +G + ++ G+NG
Sbjct: 115 REDIMSGKLKSGSEIKDALKESVLEML------AKKNSKTELQLGFRKPAVIMIVGVNGG 168
Query: 254 GKTTT 258
GKTT+
Sbjct: 169 GKTTS 173
>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A
{Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB:
1j8y_F
Length = 297
Score = 28.6 bits (65), Expect = 2.4
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 247 LLGLNGAGKTTT 258
L+G+ G GKTTT
Sbjct: 103 LVGVQGTGKTTT 114
>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer,
nucleotide twinning, protein complex, protein transport;
HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1
c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D
2iyl_D* 2cnw_D* 2j7p_D*
Length = 304
Score = 28.7 bits (65), Expect = 2.5
Identities = 8/10 (80%), Positives = 9/10 (90%)
Query: 249 GLNGAGKTTT 258
G+NG GKTTT
Sbjct: 109 GVNGVGKTTT 118
>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS
protein structure initiative, PSI, joint center for
structu genomics; HET: CIT; 1.60A {Thermotoga maritima}
SCOP: a.24.13.1 c.37.1.10
Length = 306
Score = 28.7 bits (65), Expect = 2.5
Identities = 7/10 (70%), Positives = 9/10 (90%)
Query: 249 GLNGAGKTTT 258
G+NG GKTT+
Sbjct: 111 GVNGTGKTTS 120
>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP,
translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A
Length = 504
Score = 28.8 bits (65), Expect = 2.5
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 247 LLGLNGAGKTTT 258
+GL G+GKTTT
Sbjct: 106 FVGLQGSGKTTT 117
>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding,
membrane trafficking, structural genomics, structural
genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens}
SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*
Length = 188
Score = 27.9 bits (63), Expect = 2.6
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 247 LLGLNGAGKTTT-FKMLTG----AIKPTSG 271
L+GL +GKTT + +G + PT G
Sbjct: 27 LVGLQYSGKTTFVNVIASGQFNEDMIPTVG 56
>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein
translocation, GTP-binding, nucleotide-binding, protein
transport; 1.75A {Arabidopsis thaliana}
Length = 302
Score = 28.3 bits (64), Expect = 2.6
Identities = 7/10 (70%), Positives = 9/10 (90%)
Query: 249 GLNGAGKTTT 258
G+NG GKTT+
Sbjct: 107 GVNGGGKTTS 116
>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288;
multidrug transporter, transport protein; HET: ANP;
2.90A {Thermotoga maritima}
Length = 598
Score = 28.7 bits (65), Expect = 2.8
Identities = 17/54 (31%), Positives = 24/54 (44%)
Query: 229 KPAVNQISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRD 282
KP + I+F + G+ L+G G+GKTT +L G V IR
Sbjct: 368 KPVLKDITFHIKPGQKVALVGPTGSGKTTIVNLLMRFYDVDRGQILVDGIDIRK 421
>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA
binding protein, hydrolase, gtpas; HET: GCP; 3.94A
{Escherichia coli} PDB: 2j28_9
Length = 433
Score = 28.6 bits (65), Expect = 2.8
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 247 LLGLNGAGKTTT 258
+ GL GAGKTT+
Sbjct: 105 MAGLQGAGKTTS 116
>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase,
ultrahigh resolution, protein transport; 1.10A {Thermus
aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B*
1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B*
2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A
1ffh_A 2ng1_A*
Length = 295
Score = 28.3 bits (64), Expect = 3.2
Identities = 9/12 (75%), Positives = 11/12 (91%)
Query: 247 LLGLNGAGKTTT 258
L+GL G+GKTTT
Sbjct: 103 LVGLQGSGKTTT 114
>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET:
ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A*
2ouk_A 2q0h_A* 3c4j_A* 3c41_J*
Length = 263
Score = 27.9 bits (63), Expect = 3.6
Identities = 10/49 (20%), Positives = 22/49 (44%)
Query: 235 ISFGVGRGECFGLLGLNGAGKTTTFKMLTGAIKPTSGNAYVMNHSIRDS 283
I+ + GE ++G +G+GK+T + L G + +++
Sbjct: 43 INVHIREGEVVVVIGPSGSGKSTFLRCLNLLEDFDEGEIIIDGINLKAK 91
>3llu_A RAS-related GTP-binding protein C; structural genomics consortium,
SGC, cytoplasm, nucleotide-binding, nucleus,
phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB:
2q3f_A*
Length = 196
Score = 27.6 bits (61), Expect = 3.6
Identities = 7/22 (31%), Positives = 14/22 (63%)
Query: 247 LLGLNGAGKTTTFKMLTGAIKP 268
L+GL +GK++ K++ + P
Sbjct: 25 LMGLRRSGKSSIQKVVFHKMSP 46
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 28.3 bits (63), Expect = 3.7
Identities = 11/34 (32%), Positives = 21/34 (61%), Gaps = 3/34 (8%)
Query: 247 LLGLNGAGKTTTFKMLTGAIKPTSGN---AYVMN 277
++G +G GKTT++++ AI+ A+VM+
Sbjct: 911 MVGPSGGGKTTSWEVYLEAIEQVDNIKSEAHVMD 944
>3auy_A DNA double-strand break repair RAD50 ATPase; DNA repair, ABC
transporter ATPase domain-like; HET: DNA ADP; 2.70A
{Methanocaldococcus jannaschii} PDB: 3aux_A* 3av0_B*
Length = 371
Score = 27.9 bits (62), Expect = 4.2
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 11/41 (26%)
Query: 219 FKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTF 259
FK + NS+ I F G ++G NG+GK++ F
Sbjct: 13 FKSHVNSR--------IKFEKG---IVAIIGENGSGKSSIF 42
>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga
maritima} PDB: 3qg5_A 3tho_A*
Length = 365
Score = 27.9 bits (62), Expect = 4.4
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 245 FGLLGLNGAGKTTTF 259
+ G NGAGK++ F
Sbjct: 26 TVVEGPNGAGKSSLF 40
>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold,
coiled-coils, ATPase, exonuclease, endonucle binding,
DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB:
3qkr_A*
Length = 203
Score = 27.3 bits (61), Expect = 5.0
Identities = 5/13 (38%), Positives = 10/13 (76%)
Query: 245 FGLLGLNGAGKTT 257
++G NG+GK++
Sbjct: 26 NLIIGQNGSGKSS 38
>2zzs_A Cytochrome C554; C-type cytochrome, electron transport; HET: HEC;
1.80A {Vibrio parahaemolyticus}
Length = 103
Score = 26.2 bits (58), Expect = 5.1
Identities = 7/14 (50%), Positives = 8/14 (57%), Gaps = 2/14 (14%)
Query: 150 GKNL--TCMACHGA 161
G+ C ACHGA
Sbjct: 27 GQAKAAVCAACHGA 40
>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG,
structural genomics, midwest center for structural
genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB:
3h0k_A
Length = 179
Score = 27.1 bits (60), Expect = 5.6
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 245 FGLLGLNGAGKTTTFKML 262
+ G+ G+GK+ K+L
Sbjct: 4 ILITGMPGSGKSEFAKLL 21
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat
ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 27.0 bits (60), Expect = 6.0
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 247 LLGLNGAGKTTTFKML 262
L+G+ G+GKTT K++
Sbjct: 53 LVGMMGSGKTTVGKIM 68
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain,
PIN-tower interface, coupling hydrolysis to DNA
unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Length = 459
Score = 27.3 bits (60), Expect = 6.2
Identities = 13/77 (16%), Positives = 21/77 (27%), Gaps = 14/77 (18%)
Query: 192 EEDDVRKERERVERGADSGDVLVVKRLFKIYANSKDTKPAVNQI-SFGVGRGECFGLLGL 250
R + D L ++ K A N + + + G
Sbjct: 7 HHHHSSGLVPRGSH--MTFDDL-----------TEGQKNAFNIVMKAIKEKKHHVTINGP 53
Query: 251 NGAGKTTTFKMLTGAIK 267
G G TT K + A+
Sbjct: 54 AGTGATTLTKFIIEALI 70
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 26.9 bits (59), Expect = 7.2
Identities = 5/22 (22%), Positives = 12/22 (54%)
Query: 247 LLGLNGAGKTTTFKMLTGAIKP 268
L+G +G+GK++ ++
Sbjct: 8 LMGRSGSGKSSMRSIIFSNYSA 29
>3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity,
CRP, CLP, C-DI-GMP receptor, quorum SENS binding,
transcription; 2.30A {Xanthomonas campestris PV}
Length = 230
Score = 26.9 bits (60), Expect = 7.4
Identities = 16/78 (20%), Positives = 24/78 (30%), Gaps = 16/78 (20%)
Query: 186 PVPVSLEEDDVRK-----ERERVERGA------DSGDVL--VVKRLFKIYANSKDTKPAV 232
++L+ + + R R D L V+ I A D + V
Sbjct: 17 TPSLTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSIIAEEDDDRELV 76
Query: 233 NQISFGVGRGECFGLLGL 250
G GE G +GL
Sbjct: 77 LGY---FGSGEFVGEMGL 91
>1psq_A Probable thiol peroxidase; structural genomics, NYSGXRC, PSI,
structure initiative, NEW YORK SGX research center for
STRU genomics; 2.30A {Streptococcus pneumoniae} SCOP:
c.47.1.10
Length = 163
Score = 26.4 bits (59), Expect = 8.6
Identities = 8/29 (27%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 112 FCLGEGL--MKLANTYWTSSFANSYGTRL 138
+C EGL + + Y+ SF Y +
Sbjct: 91 WCGAEGLDNAIMLSDYFDHSFGRDYALLI 119
>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication;
1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A*
1us8_A*
Length = 149
Score = 26.2 bits (58), Expect = 9.3
Identities = 8/41 (19%), Positives = 19/41 (46%), Gaps = 11/41 (26%)
Query: 219 FKIYANSKDTKPAVNQISFGVGRGECFGLLGLNGAGKTTTF 259
F+ ++++ + F G ++G NG+GK++
Sbjct: 11 FRSHSDTV--------VEFKEG---INLIIGQNGSGKSSLL 40
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
0.326 0.140 0.433
Gapped
Lambda K H
0.267 0.0726 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,307,246
Number of extensions: 245027
Number of successful extensions: 1024
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1022
Number of HSP's successfully gapped: 120
Length of query: 288
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 195
Effective length of database: 4,105,140
Effective search space: 800502300
Effective search space used: 800502300
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 57 (25.7 bits)