RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6082
(275 letters)
>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 = 58.7 bits (143), Expect = 5e-10
Identities = 40/225 (17%), Positives = 70/225 (31%), Gaps = 35/225 (15%)
Query: 30 IILGYGIARICSSGFNELRNAVFASVAQRSIRKIAKNVFLHLHNLDLAFHLNRQTGAL-S 88
I + I I +R + + + + I K ++ HL L F+ N Q G + S
Sbjct: 63 IGIALFIFVIVRPPIEFIRQYLAQWTSNKILYDIRKKLYNHLQALSARFYANNQVGQVIS 122
Query: 89 KII-DRGSRGINFVLSAMVFNIVPTIFELALISSILSYKCGTLISSILSYKCGSEFSLLA 147
++I D + + NI + + SI+ + + L +L A
Sbjct: 123 RVINDVEQ--TKDFILTGLMNIWLDCITIIIALSIMFF-----LDVKL--------TLAA 167
Query: 148 VSCVGIYTAYTLSITQW-RTQFR--------VNMNKAENEAGNKAIDSLINYETVKYFNN 198
+ Y R R V E G VK F
Sbjct: 168 LFIFPFYILTVYVFFGRLRKLTRERSQALAEVQGFLHERVQGIS---------VVKSFAI 218
Query: 199 EKFEADRYEGVLKKYEQAALKTSTSLATLNFGQSAIGKLMLTLVL 243
E EA ++ + ALK + A + + + +V+
Sbjct: 219 EDNEAKNFDKKNTNFLTRALKHTRWNAYSFAAINTVTDIGPIIVI 263
>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 = 53.4 bits (129), Expect = 3e-08
Identities = 48/234 (20%), Positives = 89/234 (38%), Gaps = 27/234 (11%)
Query: 17 TNATDALIASATSIILGYGIARICSSGFNELRNAVFASVAQRSIRKIAKNVFLHLHNLDL 76
TN T + T + LG +C + N +R + + QR + ++ ++F + ++
Sbjct: 51 TNPTVDYSDNLTRLCLGLSAVFLCGAAANAIRVYLMQTSGQRIVNRLRTSLFSSILRQEV 110
Query: 77 AFHLNRQTGALSKIIDRGSRGINFVLSAMVFNIVPTIFELALISSILSYKCGTLISSILS 136
AF +TG L I+R S + ++ N+ + + G + +S
Sbjct: 111 AFFDKTRTGEL---INRLSSDTALLGRSVTENLS------DGLRAGAQASVGISMMFFVS 161
Query: 137 YKCGSEFSLLAVSCV-------GIYTAYTLSITQWRTQFRVNMNKAENEAGNKAIDSLIN 189
+ +S V IY Y +T+ TQ + +A A + + N
Sbjct: 162 PN----LATFVLSVVPPVSIIAVIYGRYLRKLTK-VTQ------DSLAQATQLAEERIGN 210
Query: 190 YETVKYFNNEKFEADRYEGVLKKYEQAALKTSTSLATLNFGQSAIGKLMLTLVL 243
TV+ F E E ++Y + Q A K + + A G L++ VL
Sbjct: 211 VRTVRAFGKEMTEIEKYASKVDHVMQLARKEAFARAGFFGATGLSGNLIVLSVL 264
>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 = 53.1 bits (128), Expect = 4e-08
Identities = 34/227 (14%), Positives = 79/227 (34%), Gaps = 14/227 (6%)
Query: 4 NTGIVSDGALLELTNATDALIASATSIILGYGIARICSSGFNELRNAVFASVAQRSIRKI 63
+ ++ + + L T+ Y ++ + + A R I KI
Sbjct: 84 VSKNSTNMSEADKRAMFAKLEEEMTTYAYYYTGIGAGVLIVAYIQVSFWCLAAGRQIHKI 143
Query: 64 AKNVFLHLHNLDLAFHLNRQTGALSKIIDRGSRGINFVLSAMVFNIVPTIFELALISSIL 123
+ F + N ++ + G L+ + IN + + ++
Sbjct: 144 RQKFFHAIMNQEIGWFDVHDVGELNTRLTDDVSKINEGIGDKIGMF---------FQAMA 194
Query: 124 SYKCGTLISSILSYKCGSEFSLLAVSCVGIYTAYTLSITQWRTQFRVNMNKAENEAGNKA 183
++ G +I +K +L+ ++ + + + F A +AG A
Sbjct: 195 TFFGGFIIGFTRGWK----LTLVILAISPVLGLSAGIWAKILSSFTDKELHAYAKAGAVA 250
Query: 184 IDSLINYETVKYFNNEKFEADRYEGVLKKYEQAALKTSTSLATLNFG 230
+ L TV F +K E +RY L++ ++ +K + + ++ G
Sbjct: 251 EEVLAAIRTVIAFGGQKKELERYNNNLEEAKRLGIKKAITAN-ISMG 296
Score = 46.6 bits (111), Expect = 5e-06
Identities = 36/221 (16%), Positives = 79/221 (35%), Gaps = 16/221 (7%)
Query: 14 LELTNATDALIASATSIILGYGIARICSSGFNELRNAVFASVAQRSIRKIAKNVFLHLHN 73
+ ++ L + I I S L+ F + +++ VF +
Sbjct: 735 FTNGGPPETQRQNSNLFSLLFLILGIISFITFFLQGFTFGKAGEILTKRLRYMVFKSMLR 794
Query: 74 LDLAFHL--NRQTGALSKIIDRGSRGINFVLSAMVFNIVPTIFELALISSILSYKCGTLI 131
D+++ TGAL+ + + V A + + +I + G +I
Sbjct: 795 QDVSWFDDPKNTTGALTTRL---ANDAAQVKGATGSRLA------VIFQNIANLGTGIII 845
Query: 132 SSILSYKCGSEFSLLAVSCVGIYTAYTLSITQWRTQFRVNMNKAENEAGNKAIDSLINYE 191
S I ++ +LL ++ V I + + + + K +G A +++ N+
Sbjct: 846 SLIYGWQ----LTLLLLAIVPIIAIAGVVEMKMLSGQALKDKKELEGSGKIATEAIENFR 901
Query: 192 TVKYFNNEKFEADRYEGVLKKYEQAALKTSTSLATLNFGQS 232
TV E+ Y L+ + A+K + + + F +
Sbjct: 902 TVVSLTREQKFETMYAQSLQIPYRNAMKKAH-VFGITFSFT 941
>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 = 50.7 bits (122), Expect = 2e-07
Identities = 38/220 (17%), Positives = 81/220 (36%), Gaps = 25/220 (11%)
Query: 30 IILGYGIARICSSGFNELRNAVFASVAQRSIRKIAKNVFLHLHNLDLAFHLNRQTGALSK 89
+ L I + + + + V+ + + + + +F H+ + +AF + TG L
Sbjct: 67 MPLVVIGLMILRGITSYISSYCISWVSGKVVMTMRRRLFGHMMGMPVAFFDKQSTGTLL- 125
Query: 90 IIDRGSRGINFV--LSAMVFNIVPTIF-ELALISSILSYKCGTLISSILSYKCGSEFSLL 146
SR +++ + T+ E A I + + S++ L
Sbjct: 126 -----SRITYDSEQVASSSSGALITVVREGASIIGLFIM----MF--YYSWQ-------L 167
Query: 147 AVSCVGIYTAYTLSITQWRTQFRVNMNKAENEAGN---KAIDSLINYETVKYFNNEKFEA 203
++ V + +++I +FR +N G A L ++ V F ++ E
Sbjct: 168 SIILVVLAPIVSIAIRVVSKRFRSISKNMQNTMGQVTTSAEQMLKGHKEVLIFGGQEVET 227
Query: 204 DRYEGVLKKYEQAALKTSTSLATLNFGQSAIGKLMLTLVL 243
R++ V K +K ++ + + I L L VL
Sbjct: 228 KRFDKVSNKMRLQGMKMVSASSISDPIIQLIASLALAFVL 267
>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 = 48.3 bits (116), Expect = 1e-06
Identities = 33/220 (15%), Positives = 75/220 (34%), Gaps = 25/220 (11%)
Query: 30 IILGYGIARICSSGFNELRNAVFASVAQRSIRKIAKNVFLHLHNLDLAFHLNRQTGALSK 89
+ + + V+ + ++ + +F H ++ + F TG L
Sbjct: 67 LPFMILGLMFVRGLSGFASSYCLSWVSGNVVMQMRRRLFNHFMHMPVRFFDQESTGGLL- 125
Query: 90 IIDRGSRGINFV--LSAMVFNIVPTIF-ELALISSILSYKCGTLISSILSYKCGSEFSLL 146
SR ++ + +I E A I +L+ + S++ L
Sbjct: 126 -----SRITYDSEQVAGATSRALVSIVREGASIIGLLTL----MFW--NSWQ-------L 167
Query: 147 AVSCVGIYTAYTLSITQWRTQFRVNMNKAENEAGN---KAIDSLINYETVKYFNNEKFEA 203
++ + + +I+ +FR + G+ A L ++ V + ++ E
Sbjct: 168 SLVLIVVAPVVAFAISFVSKRFRKISRNMQTAMGHVTSSAEQMLKGHKVVLSYGGQEVER 227
Query: 204 DRYEGVLKKYEQAALKTSTSLATLNFGQSAIGKLMLTLVL 243
R++ V Q +K ++ + + I L L VL
Sbjct: 228 KRFDKVSNSMRQQTMKLVSAQSIADPVIQMIASLALFAVL 267
>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288;
multidrug transporter, transport protein; HET: ANP;
2.90A {Thermotoga maritima}
Length = 598
Score = 47.9 bits (115), Expect = 2e-06
Identities = 29/214 (13%), Positives = 74/214 (34%), Gaps = 32/214 (14%)
Query: 18 NATDALIASA-----TSIILGYGIARICSSGFNELRNAVFASVAQRSIRKIAKNVFLHLH 72
D + +L G +S L+ + +++Q + ++ K +F L
Sbjct: 62 KTIDVVFVPRRFDLLPRYMLILGTIYALTSLLFWLQGKIMLTLSQDVVFRLRKELFEKLQ 121
Query: 73 NLDLAFHLNRQTG-ALSKI---IDRGSRGINFVLSAM---VFNIVPTIFELALISSILSY 125
+ + F G +S++ +D + + + + + + + ++ IL
Sbjct: 122 RVPVGFFDRTPHGDIISRVINDVDNINNVLGNSIIQFFSGIVTLAGAVIMMFRVNVIL-- 179
Query: 126 KCGTLISSILSYKCGSEFSLLAVSCVGIYTAYTLSITQWRTQFRVNMNKAENEAGNKAID 185
+L++ + ++L V T R ++N E+ +G
Sbjct: 180 ---SLVTLSI-----VPLTVLITQIVSSQT-RKYFYENQRVLGQLNGIIEEDISGLT--- 227
Query: 186 SLINYETVKYFNNEKFEADRYEGVLKKYEQAALK 219
+K F E+ E ++++ V + + K
Sbjct: 228 ------VIKLFTREEKEMEKFDRVNESLRKVGTK 255
>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 = 35.3 bits (80), Expect = 0.008
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 10/34 (29%)
Query: 199 EKFEADRYEGVLKKY--EQA---ALKTSTSLATL 227
EK + + LK Y + A A+K AT+
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIK-----ATM 46
>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 = 33.5 bits (76), Expect = 0.089
Identities = 35/210 (16%), Positives = 66/210 (31%), Gaps = 66/210 (31%)
Query: 15 ELTNATDALIASATSIILGYGIARICSS---------------------------G---- 43
+L D + +I Y ARI + G
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNT 166
Query: 44 ---FNELRN--AVFASVAQRSIRKIAKNVFLHLHNLDLAFHLNRQTGALSKIID------ 92
F ELR+ + + I+ A+ L +L ++ ++
Sbjct: 167 DDYFEELRDLYQTYHVLVGDLIKFSAE----TL--SELIRTTLDAEKVFTQGLNILEWLE 220
Query: 93 -RGSR-GINFVLSAMV-FNIVPTIFELALISSILSYKCGTLISSILSYKCGSEFSLL--A 147
+ +++LS + P I + + Y + + +L + G S L A
Sbjct: 221 NPSNTPDKDYLLSIPISC---PLIG----VIQLAHY---VVTAKLLGFTPGELRSYLKGA 270
Query: 148 VSCV-GIYTAYTLSITQ-WRTQFRVNMNKA 175
G+ TA ++ T W + F V++ KA
Sbjct: 271 TGHSQGLVTAVAIAETDSWES-FFVSVRKA 299
>2rir_A Dipicolinate synthase, A chain; structural genomics, APC1343,
PSI-2, structure initiative; HET: MSE NAP; 2.79A
{Bacillus subtilis}
Length = 300
Score = 29.8 bits (67), Expect = 0.81
Identities = 8/35 (22%), Positives = 14/35 (40%)
Query: 3 LNTGIVSDGALLELTNATDALIASATSIILGYGIA 37
N+ +G ++ TD I + +LG G
Sbjct: 134 YNSIPTVEGTIMLAIQHTDYTIHGSQVAVLGLGRT 168
>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter,
transport protein; HET: ANP; 2.90A {Thermotoga maritima}
Length = 587
Score = 29.5 bits (67), Expect = 1.4
Identities = 36/231 (15%), Positives = 76/231 (32%), Gaps = 51/231 (22%)
Query: 7 IVSDGALLELTNATDALIASATSIILGYGIARICSSGF-NELRNAVFASVAQRSIRKIAK 65
++ G L+ + ALI + I + S F +LR +F V SI + +
Sbjct: 62 VLKTGILMLIV----ALIGAVGGIGCTVFASYA-SQNFGADLRRDLFRKVLSFSISNVNR 116
Query: 66 NVFLHLHNLDLAFHLNRQTGALSKIIDRGSRGINFV--LSAMVFNIVPTIFELALISSIL 123
F T +L I R + + + L M+ IV L + ++
Sbjct: 117 --F--------------HTSSL---ITRLTNDVTQLQNLVMMLLRIVVRAPLLFVGGIVM 157
Query: 124 SYKCGTLISSILSYKCGSEFSLLAVSCVGIYTAYTLSITQ--WRTQF----RVNMNKAEN 177
+ +SS+L + + + + + +R VN EN
Sbjct: 158 AVSINVKLSSVL---------IFLIPPIVLLFVWLTKKGNPLFRKIQESTDEVNRVVREN 208
Query: 178 EAGNKAIDSLINYETVKYFNNEKFEADRYEGVLKKYEQAALKTSTSLATLN 228
G + + + F E++E + + + ++ + + +
Sbjct: 209 LLGVRVV---------RAFRREEYENENFRKANESLRRSIISAFSLIVFAL 250
>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 = 29.4 bits (65), Expect = 1.7
Identities = 13/76 (17%), Positives = 26/76 (34%), Gaps = 10/76 (13%)
Query: 21 DALIASAT-SIILGYGIARICSSGFNELRNAVFASVAQRSIRKIAKNVFLHLHNL--DLA 77
A I + S+I I N+L S+ ++ K + + ++ +L
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVVVNKLHKY---SLVEKQ----PKESTISIPSIYLELK 436
Query: 78 FHLNRQTGALSKIIDR 93
L + I+D
Sbjct: 437 VKLENEYALHRSIVDH 452
Score = 29.4 bits (65), Expect = 1.8
Identities = 18/158 (11%), Positives = 47/158 (29%), Gaps = 32/158 (20%)
Query: 127 CG--TLISSILSYKCGSEFSLLAVSCVGIY--------TAYTLSITQWRTQFRVNMNKAE 176
G + + + + I+ + T+ + ++++ N
Sbjct: 161 SGKTWVALDVCL-----SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTS 215
Query: 177 NEAGNKAIDSLINYETVKYFNNEKFEADRYEGVL--------KKYEQA------ALKTST 222
+ I + +++ ++ YE L K A L T+
Sbjct: 216 RSDHSSNIK--LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR 273
Query: 223 SLATLNFGQSAIGKLMLTLVLNLQSFEPHQLLDCLLTW 260
+F +A ++L + + P ++ LL +
Sbjct: 274 FKQVTDFLSAATTT-HISLDHHSMTLTPDEVKSLLLKY 310
>3d4o_A Dipicolinate synthase subunit A; NP_243269.1, structural GEN joint
center for structural genomics, JCSG, protein structu
initiative, PSI-2; HET: MSE TAR; 2.10A {Bacillus
halodurans}
Length = 293
Score = 27.2 bits (60), Expect = 6.5
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 3 LNTGIVSDGALLELTNATDALIASATSIILGYG 35
N+ ++G ++ TD I A +LG G
Sbjct: 132 YNSIPTAEGTIMMAIQHTDFTIHGANVAVLGLG 164
>1zej_A HBD-9, 3-hydroxyacyl-COA dehydrogenase; structural genomics,
joint center for structural genomics, J protein
structure initiative, PSI; HET: PE8; 2.00A
{Archaeoglobus fulgidus}
Length = 293
Score = 26.8 bits (60), Expect = 8.4
Identities = 7/35 (20%), Positives = 14/35 (40%)
Query: 33 GYGIARICSSGFNELRNAVFASVAQRSIRKIAKNV 67
G GIA +S + V + + +I + +
Sbjct: 24 GRGIAIAIASKHEVVLQDVSEKALEAAREQIPEEL 58
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.134 0.382
Gapped
Lambda K H
0.267 0.0792 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,857,929
Number of extensions: 215341
Number of successful extensions: 442
Number of sequences better than 10.0: 1
Number of HSP's gapped: 438
Number of HSP's successfully gapped: 17
Length of query: 275
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 183
Effective length of database: 4,133,061
Effective search space: 756350163
Effective search space used: 756350163
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (25.2 bits)