RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2024
(352 letters)
>3e6u_A LANC-like protein 1; alpha barrel, cytoplasm, signaling protein;
2.60A {Homo sapiens} PDB: 3e73_A*
Length = 411
Score = 134 bits (339), Expect = 2e-36
Identities = 62/207 (29%), Positives = 107/207 (51%), Gaps = 10/207 (4%)
Query: 6 SSRHHQNKYKYGEGEKSKLFTVENKEKIVLHPSFETKVWATLTRLIEDIDSEYETSDKFR 65
+ R N Y ++ + L P F ++ + L++ ++ +++D
Sbjct: 14 AQRAFPNPYADYNKSLAEGYFDAAGR---LTPEFSQRLTNKIRELLQQMERGLKSADP-- 68
Query: 66 DHDYSVYVGTSGQAMFYYIYYQRTHDSKYLDKAQKLIERSLKNLKNRRFSFLNGDAGPIA 125
D + Y G +G A+ Y Y D YL A +++SL L R +FL GDAGP+A
Sbjct: 69 -RDGTGYTGWAGIAVLYLHLYDVFGDPAYLQLAHGYVKQSLNCLTKRSITFLCGDAGPLA 127
Query: 126 VSALIYEALGKQEKLESSVQKLKALAPHVVDLRSDIPDEILYGRAGYLYSLLFVNKHIKS 185
V+A++Y + +++ E + +L H+ + P+E+LYGR GY+Y+LLFVNK+
Sbjct: 128 VAAVLYHKMNNEKQAEDCITRLI----HLNKIDPHAPNEMLYGRIGYIYALLFVNKNFGV 183
Query: 186 VNIEASLIHQVVDSILRSGQNLSARKK 212
I S I Q+ ++IL SG+NL+ ++
Sbjct: 184 EKIPQSHIQQICETILTSGENLARKRN 210
Score = 43.3 bits (101), Expect = 8e-05
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 6/55 (10%)
Query: 74 GTSGQAMFYYIYYQRTHDSKYLDKAQKLIERSLKNLKN------RRFSFLNGDAG 122
G++G A + Y T D KYL +A K E L+ ++ FS G AG
Sbjct: 336 GSAGNAYAFLTLYNLTQDMKYLYRACKFAEWCLEYGEHGCRTPDTPFSLFEGMAG 390
Score = 42.5 bits (99), Expect = 1e-04
Identities = 26/179 (14%), Positives = 52/179 (29%), Gaps = 14/179 (7%)
Query: 9 HHQNKYKYGEGEKSKLFTVENKEKIVLHPSFETKVWATLTRLIEDIDSEYETSDKFRDHD 68
+ + G + + V + V ++ + + D+
Sbjct: 222 YQEYYVGAAHGLAGIYYYLMQPSLQVSQGKLHSLVKPSVDYVCQLKFPSGNYPPCIGDNR 281
Query: 69 YSVY---VGTSGQAMFYYIYYQRTHDSKYLDKAQKLIERSLKN-LKNRRFSFLNGDAGPI 124
+ G G Y+ + KYL A + + + L + + +G AG
Sbjct: 282 DLLVHWCHGAPGVIYMLIQAYKVFREEKYLCDAYQCADVIWQYGLLKKGYGLCHGSAGNA 341
Query: 125 AVSALIYEALGKQEKLESSVQKLKALAPHVVDLRSD---IPDEI--LY-GRAGYLYSLL 177
+Y + L + A ++ PD L+ G AG +Y L
Sbjct: 342 YAFLTLYNLTQDMKYLY----RACKFAEWCLEYGEHGCRTPDTPFSLFEGMAGTIYFLA 396
>2g0d_A Nisin biosynthesis protein NISC; alpha toroid, alpha barrel,
biosynthetic protein; 2.21A {Lactococcus lactis subsp}
SCOP: a.102.6.1 PDB: 2g02_A
Length = 409
Score = 88.7 bits (219), Expect = 8e-20
Identities = 29/181 (16%), Positives = 67/181 (37%), Gaps = 15/181 (8%)
Query: 47 LTRLIEDIDSEYET-----SDKFRDHDYSVYVGTSGQAMFYYIYYQRTHDSKYLDKAQKL 101
+ R +E I ++++ + F + ++ G G + + + Y K
Sbjct: 4 IKRNVEKIIAQWDERTRKNKENFDFGELTLSTGLPGIILMLAELKNKDNSKIYQKKIDNY 63
Query: 102 IERSLKNLKNRR---FSFLNGDAGPIAVSALIYEALGKQEKLESSVQKL------KALAP 152
IE + L S +G AG + E K + L S+ + + +
Sbjct: 64 IEYIVSKLSTYGLLTGSLYSGAAGIALSILHLREDDEKYKNLLDSLNRYIEYFVREKIEG 123
Query: 153 HVVDLRSDIPDEILYGRAGYLYSLLFVNKHIKSVNIEASLIHQVVDSILRSGQNLSARKK 212
++ + +++ G +G L LL +N +++ +I+ + + + +S K
Sbjct: 124 FNLENITPPDYDVIEGLSGILSYLLLINDEQYD-DLKILIINFLSNLTKENNGLISLYIK 182
Query: 213 S 213
S
Sbjct: 183 S 183
Score = 38.6 bits (89), Expect = 0.002
Identities = 10/53 (18%), Positives = 20/53 (37%), Gaps = 4/53 (7%)
Query: 74 GTSGQAMFYYIYYQRTHDSKYLDKAQKLIERSLKNLKN----RRFSFLNGDAG 122
G SG ++ + + K+ ++ S + L+ FL G +G
Sbjct: 326 GYSGLIEICSLFKRLLNTKKFDSYMEEFNVNSEQILEEYGDESGTGFLEGISG 378
>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 = 54.1 bits (129), Expect = 4e-08
Identities = 61/446 (13%), Positives = 126/446 (28%), Gaps = 132/446 (29%)
Query: 1 METKHSSRHHQNK---------------YKYGEGEKSKLFTVENKEKIVLHPSFETKVWA 45
M+ + +Q K K + + + E + I++ +
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG--- 63
Query: 46 TLTRLIEDI--DSEYETSDKF----RDHDYS--------VYVGTSGQAMFYYIYYQRTHD 91
T + + E KF +Y S Y R ++
Sbjct: 64 --TLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN 121
Query: 92 -----SKY----LDKAQKLIERSLKNLKNRRFSFLNGDAGPIAVSALIYEAL-------- 134
+KY L KL ++L L+ + ++G G + + +
Sbjct: 122 DNQVFAKYNVSRLQPYLKL-RQALLELRPAKNVLIDGVLG-SGKTWVALDVCLSYKVQCK 179
Query: 135 ----------GKQEKLESSVQKLKALAPHV-------VDLRSDIPDEI---------LYG 168
E+ ++ L+ L + D S+I I L
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239
Query: 169 RAGYLYSLLFV-----NKHIKSVNIEASLI-----HQVVDSILRSGQNLSARKKSRVPLI 218
Y LL + K + N+ ++ QV D LSA + + L
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDF-------LSAATTTHISLD 292
Query: 219 NFL----------MLISCGNNTNQ--PTKSHLYIILFCSSLCDSVKMETKHSSRHHENKY 266
+ +L+ + Q P + S + +S++ +
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN-----W 347
Query: 267 KYGEGEK---------SKLFTVENK---EKIVLHPSFETKV-RATLTRLVEDIDMSTRQA 313
K+ +K + L E + +++ + P + L+ + D+ S
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP-SAHIPTILLSLIWFDVIKSDVM- 405
Query: 314 TSFEIMTTLSMSGPVDR-PCFITSTI 338
++ L V++ P T +I
Sbjct: 406 ---VVVNKLHKYSLVEKQPKESTISI 428
Score = 39.8 bits (92), Expect = 0.001
Identities = 44/301 (14%), Positives = 86/301 (28%), Gaps = 88/301 (29%)
Query: 8 RHHQNKYKYGEGEKSKLFTVENKEKIV------LHPS-----------FETKVW---ATL 47
R + K + I+ L P+ F L
Sbjct: 338 RDGLATWDN-----WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392
Query: 48 TRLIEDIDSEYETSDKFRDHDYSVYVGTSGQAMFYYIYYQRTHDSKYLDKAQKL-----I 102
+ + D+ + H YS+ V + I S YL+ KL +
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSL-VEKQPKESTISIP------SIYLELKVKLENEYAL 445
Query: 103 ERSLKNLKNRRFSFLNGDAGPIAVSALIYEALGKQEKLESSVQKLKALAPHVVDLRSDIP 162
RS+ + N +F + D P + Y +G H+ ++
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH----------------HLKNIEHP-- 487
Query: 163 DEILYGRAGYLYSLLFVNKHIK----SVNIEASLIHQVVD------SILRSGQNLSARKK 212
+ + R +L F+ + I+ + N S+++ + I +
Sbjct: 488 ERMTLFRMVFL-DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVN 546
Query: 213 SRVPLINFLMLISCGNNTNQPTKSHLYIILFCSSLCDSVKMETKHSSRHHENKYKYGEGE 272
+ +++FL N L CS D + + E++ + E
Sbjct: 547 A---ILDFLP--KIEEN------------LICSKYTDLL-----RIALMAEDEAIFEEAH 584
Query: 273 K 273
K
Sbjct: 585 K 585
>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 = 45.0 bits (106), Expect = 3e-05
Identities = 41/253 (16%), Positives = 76/253 (30%), Gaps = 102/253 (40%)
Query: 58 YETSDKFRD-------HDYSVY-------V------------GTSGQAM---FYYIYYQR 88
Y+TS +D H Y V G G+ + + + ++
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFET 1695
Query: 89 THDSKYLDKAQKLIERSLKNLKNRRFSFLNGDAG---------P--IAVSALIYEALGKQ 137
D K K +K+ + N + ++F + G P + +E L
Sbjct: 1696 IVDGK--LKTEKIFKE--INEHSTSYTF-RSEKGLLSATQFTQPALTLMEKAAFEDL--- 1747
Query: 138 EKLESSVQKLKALAPH----------------------VVDLR-----SDIP-DEILYGR 169
K + + A H VV R +P DE+ GR
Sbjct: 1748 -KSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDEL--GR 1804
Query: 170 AGYLYSLLFVNKHIKSVNIEASLIHQVVDSIL-RSGQNLSARKKSRVPLINFLMLISCGN 228
+ Y ++ +N + + + VV+ + R+G + +N+ N
Sbjct: 1805 SN--YGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEI--------VNY-------N 1847
Query: 229 NTNQPTKSHLYII 241
NQ Y+
Sbjct: 1848 VENQ-----QYVA 1855
Score = 43.1 bits (101), Expect = 1e-04
Identities = 51/375 (13%), Positives = 92/375 (24%), Gaps = 140/375 (37%)
Query: 75 TSGQAMFYYIY--------Y----QRTHDSKYLDKAQKLIERS---LKNL------KNRR 113
G A I+ Y + + + Y LI+ S L L +
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELRDLYQT-YHVLVGDLIKFSAETLSELIRTTLDAEKV 208
Query: 114 F-------SFLNG-DAGP-------IAVSA-LI-------YEALGKQEKL--ESSVQKLK 148
F +L P I +S LI Y K LK
Sbjct: 209 FTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK 268
Query: 149 ALAPHVVDL-------RSDIPDEILYGRAGYLYSLLFVNKHI--------KSVNIEASLI 193
H L +D + + ++LF I + ++ S++
Sbjct: 269 GATGHSQGLVTAVAIAETDSWES-FFVSVRKAITVLF---FIGVRCYEAYPNTSLPPSIL 324
Query: 194 HQVVDSILRSGQN-----LSARKKSRVPLINFLMLISCGNNTNQPTKSHLYIILFCS--- 245
+++ + LS ++ + +++ N++ P + I L
Sbjct: 325 EDSLEN----NEGVPSPMLSISNLTQEQVQDYVNKT----NSHLPAGKQVEISLVNGAKN 376
Query: 246 --------SL---------------CDSVKMETKHSSRH--------------HENKYKY 268
SL D + S R H
Sbjct: 377 LVVSGPPQSLYGLNLTLRKAKAPSGLDQSR--IPFSERKLKFSNRFLPVASPFHS---HL 431
Query: 269 GEGEKSKLFTVENKEKIVLHPS------FETK----VRATLTRLVEDI-DMSTRQATSFE 317
+ K + + ++T +R + E I D R +E
Sbjct: 432 LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWE 491
Query: 318 IMTTLSMS-----GP 327
T + GP
Sbjct: 492 TTTQFKATHILDFGP 506
Score = 33.1 bits (75), Expect = 0.16
Identities = 28/156 (17%), Positives = 49/156 (31%), Gaps = 56/156 (35%)
Query: 102 IERSLKNLKNR---------RFSFLNGDAGPIAVSALIYEALGKQEKLESSVQKLKALAP 152
IE ++ + R R + G IA++ A QE L+ V+++
Sbjct: 1779 IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTG 1838
Query: 153 HVVDLRSDIPDEILYGRAGYLYSLLFVNKHIKSVNIEASLIHQVVDSILRSGQN------ 206
+V EI VN N+E Q V +G
Sbjct: 1839 WLV--------EI-------------VN-----YNVENQ---QYV--A--AGDLRALDTV 1865
Query: 207 ---LSARKKSRVPLINFLMLISCGNNTNQPTKSHLY 239
L+ K ++ +I +S + + HL+
Sbjct: 1866 TNVLNFIKLQKIDIIELQKSLSL-----EEVEGHLF 1896
>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 = 0.004
Identities = 8/19 (42%), Positives = 10/19 (52%), Gaps = 5/19 (26%)
Query: 136 KQE--KLESSVQKLKALAP 152
KQ KL++S LK A
Sbjct: 19 KQALKKLQAS---LKLYAD 34
Score = 32.6 bits (73), Expect = 0.079
Identities = 9/37 (24%), Positives = 18/37 (48%), Gaps = 10/37 (27%)
Query: 96 DKAQ-KLIERSLKNLKNRRFSFLNGDAGP-IAVSALI 130
+K K ++ SLK ++ D+ P +A+ A +
Sbjct: 18 EKQALKKLQASLK-----LYA---DDSAPALAIKATM 46
>3e7j_A Heparinase II protein; alpha and beta lyase, alpha6/alpha6
incomplete toroid, sugar protein, lyase; HET: NAG GCU
GCD; 2.10A {Pedobacter heparinus} PDB: 3e80_A* 2fut_A*
2fuq_A*
Length = 749
Score = 35.1 bits (79), Expect = 0.040
Identities = 26/123 (21%), Positives = 44/123 (35%), Gaps = 4/123 (3%)
Query: 42 KVWATLTRLIEDIDSEYETS-DKFRDHDYSVYVGTSGQAMFYYIYYQRTHDSKYLDKAQK 100
KVWA + ++ ED FR + + + M Y T D K +A
Sbjct: 49 KVWADMIKMQEDWKPADIPEVKDFRFYFNQKGLTVRVELMALN--YLMTKDPKVGREAIT 106
Query: 101 LIERSLKNLKNRRFSFLNGDAG-PIAVSALIYEALGKQEKLESSVQKLKALAPHVVDLRS 159
I +L+ + ++ G + A++Y+ Q K E + +KA L
Sbjct: 107 SIIDTLETATFKPAGDISRGIGLFMVTGAIVYDWCYDQLKPEEKTRFVKAFVRLAKMLEC 166
Query: 160 DIP 162
P
Sbjct: 167 GYP 169
>2zzr_A Unsaturated glucuronyl hydrolase; alpha barrel; 1.75A
{Streptococcus agalactiae} PDB: 3anj_A 3ank_A* 3ani_A*
Length = 397
Score = 33.8 bits (77), Expect = 0.082
Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 10/83 (12%)
Query: 75 TSGQAMFY----YIYYQRTHDSKYLDKAQKLIERSLKNLKNRRFSFLNGDAGPIAVSALI 130
T+G F+ ++ Y+ D K + A K + S N N R + + D G + +
Sbjct: 69 TNG---FWTGCLWLAYEYNQDKKLKNIAHKNVL-SFLNRINNRIALDHHDLGFLYTPSCT 124
Query: 131 --YEALGKQEKLESSVQKLKALA 151
Y G + LE++++ L
Sbjct: 125 AEYRINGDVKALEATIKAADKLM 147
Score = 29.1 bits (65), Expect = 2.0
Identities = 12/69 (17%), Positives = 23/69 (33%), Gaps = 15/69 (21%)
Query: 77 GQA--MF-YYIYYQRTHDSKYLDKAQKLIERSLKNLKNR-----RFSFLNGD-------A 121
GQA ++ + Y++ D + + + + L L F +G A
Sbjct: 247 GQAWGIYGIPLSYRKMKDYQQIILFKGMTNYFLNRLPEDKVSYWDLIFTDGSGQPRDTSA 306
Query: 122 GPIAVSALI 130
AV +
Sbjct: 307 TATAVCGIH 315
>3k7x_A LIN0763 protein; Q92DQ0, LKR23, NESG, structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium; 1.89A {Listeria innocua}
Length = 349
Score = 32.3 bits (73), Expect = 0.20
Identities = 10/41 (24%), Positives = 16/41 (39%)
Query: 79 AMFYYIYYQRTHDSKYLDKAQKLIERSLKNLKNRRFSFLNG 119
+ Y +++KYL+ A K E K L +G
Sbjct: 156 IILSCWLYNELNETKYLEWAMKTYEWQTKVLVREDGFVEDG 196
Score = 30.4 bits (68), Expect = 0.87
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 86 YQRTHDSKYLDKAQKLIERSLKNL 109
Y+ T ++ YLD A K SLK L
Sbjct: 226 YRITKEAIYLDTANKTAAISLKEL 249
Score = 29.6 bits (66), Expect = 1.5
Identities = 22/99 (22%), Positives = 40/99 (40%), Gaps = 20/99 (20%)
Query: 59 ETSDKFRDHDYSVYVGTSGQAMFYY-----------IYYQRTHDSKYLDKAQKLIERSLK 107
+T ++F ++ Y +F Y Y RT L+ + E++
Sbjct: 21 DTKEQFLNNFYPTENPEEDNKVFNYWWLAHLVEVRLDAYLRTKKQADLE----VAEKTYL 76
Query: 108 NLKNR-RFSFLNG---DAGPIAVSAL-IYEALGKQEKLE 141
+ KNR + ++ D A++A +Y+A GK LE
Sbjct: 77 HNKNRNGGTLIHDFYDDMLWNALAAYRLYKATGKSIYLE 115
>3pmm_A Putative cytoplasmic protein; structural genomics, PSI-biology,
protein structure initiati midwest center for structural
genomics; 1.90A {Klebsiella pneumoniae subsp} PDB:
3qwt_A
Length = 382
Score = 31.9 bits (72), Expect = 0.30
Identities = 18/104 (17%), Positives = 29/104 (27%), Gaps = 7/104 (6%)
Query: 42 KVWATLTRLIEDIDSEYETSDKFRDHDYSVYVGTS-GQAMFYY---IYYQRTHDSKYLDK 97
V L + ++ D R D + G + Y YYQ+T D + D
Sbjct: 33 NVTQNLVNIKDESGQFLLRLDDGRVIDTKGWAGWEWTHGVGLYGIYQYYQQTGDIEMRDI 92
Query: 98 AQKLIERSLKNLKNRRFSFLNGDAGPIAVSALIYEALGKQEKLE 141
+ + P A +E G+ L
Sbjct: 93 IDRWFADRFAEGATTKN---VNTMAPFLTLAYRFEETGRMAYLP 133
Score = 31.2 bits (70), Expect = 0.46
Identities = 5/38 (13%), Positives = 15/38 (39%)
Query: 79 AMFYYIYYQRTHDSKYLDKAQKLIERSLKNLKNRRFSF 116
+ + + +Y+++A ++NL +R
Sbjct: 176 VLPLAKIGKLLNRPQYVEEATYQFLLHVQNLMDRETGL 213
>1nc5_A Hypothetical protein YTER; structural genomics, helix barrel, PSI,
protein structure initiative, midwest center for
structural genomics, MCSG; 1.60A {Bacillus subtilis}
SCOP: a.102.1.6 PDB: 2d8l_A* 2gh4_A*
Length = 373
Score = 31.6 bits (71), Expect = 0.34
Identities = 11/68 (16%), Positives = 26/68 (38%), Gaps = 4/68 (5%)
Query: 78 QAMFYY---IYYQRTHDSKYLDKAQKLIERSLKNLKNRRFSFLNGDAGPIAVSAL-IYEA 133
Q +F ++ T + +Y + A+ + + + N F DA + +YE
Sbjct: 43 QGVFLCGVLRLWEATGEKRYFEYAKAYADLLIDDNGNLLFRRDELDAIQAGLILFPLYEQ 102
Query: 134 LGKQEKLE 141
+ ++
Sbjct: 103 TKDERYVK 110
Score = 28.5 bits (63), Expect = 3.8
Identities = 5/35 (14%), Positives = 12/35 (34%)
Query: 79 AMFYYIYYQRTHDSKYLDKAQKLIERSLKNLKNRR 113
F Y +++ D+ K+ K+ +
Sbjct: 149 GPFALKYANLKQETELFDQVVLQESLMRKHTKDAK 183
>2ahf_A Unsaturated glucuronyl hydrolase; alpha6/alpha6 barrel, glycoside
hydrolase family 88; 1.52A {Bacillus SP} PDB: 2ahg_A*
2fv0_A* 2fv1_A* 2d5j_A 1vd5_A 2fuz_A
Length = 377
Score = 31.5 bits (71), Expect = 0.46
Identities = 11/83 (13%), Positives = 31/83 (37%), Gaps = 10/83 (12%)
Query: 75 TSGQAMFY----YIYYQRTHDSKYLDKAQKLIERSLKNLKNRRFSFLNGDAGPIAVSALI 130
T G F+ ++ Y+ T D +Y + A + + + +R + + + G + +
Sbjct: 43 TDG---FWSGILWLCYEYTGDEQYREGAVRTVAS-FRERLDRFENLDHHNIGFLYSLSAK 98
Query: 131 --YEALGKQEKLESSVQKLKALA 151
+ + + ++ L
Sbjct: 99 AQWIVEKDESARKLALDAADVLM 121
Score = 30.7 bits (69), Expect = 0.70
Identities = 15/99 (15%), Positives = 31/99 (31%), Gaps = 22/99 (22%)
Query: 77 GQAMFYYIY---YQRTHDSKYLDKAQKLIERSLKNLKNR-----RFSFLNGD-------A 121
GQA Y + + ++ L+ A+++ L + F A
Sbjct: 222 GQAWGIYGFALNSRYLGNADLLETAKRMARHFLARVPEDGVVYWDFEVPQEPSSYRDSSA 281
Query: 122 GPIAVSAL--IYEALGKQEK-----LESSVQKLKALAPH 153
I L I L + + ++++ + AL
Sbjct: 282 SAITACGLLEIASQLDESDPERQRFIDAAKTTVTALRDG 320
>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis,
TPR, superhelix, protein binding; HET: MSE; 2.00A
{Pseudomonas aeruginosa} PDB: 2fi7_A
Length = 252
Score = 27.2 bits (61), Expect = 8.1
Identities = 9/58 (15%), Positives = 18/58 (31%), Gaps = 8/58 (13%)
Query: 95 LDKAQKLIERSLKNLKNRRFSFLNGDAGPIAVSALIYEALGKQEKLESSVQKLKALAP 152
A++ + + S L G + + ++ S +LK L P
Sbjct: 191 YVPARQYYDLFAQGGGQNARSLLLG--------IRLAKVFEDRDTAASYGLQLKRLYP 240
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus}
SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A*
1iyw_A
Length = 862
Score = 27.5 bits (62), Expect = 8.3
Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 5/61 (8%)
Query: 92 SKYLDKAQKLIERSLKNLKNRRFSFLNGDAGPIAVSALIYEALGK-QEKLESSVQKLKAL 150
K L + L ERS + L + F + P V L + E+ E + L +
Sbjct: 806 EKRLKELLALAERSQRKLASPGFR----EKAPKEVVEAEEARLKENLEQAERIREALSQI 861
Query: 151 A 151
Sbjct: 862 G 862
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
0.317 0.132 0.372
Gapped
Lambda K H
0.267 0.0542 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,033,700
Number of extensions: 282952
Number of successful extensions: 642
Number of sequences better than 10.0: 1
Number of HSP's gapped: 630
Number of HSP's successfully gapped: 36
Length of query: 352
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 257
Effective length of database: 4,049,298
Effective search space: 1040669586
Effective search space used: 1040669586
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 (21.7 bits)
S2: 58 (26.5 bits)