RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5406
(523 letters)
>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 = 51.4 bits (122), Expect = 6e-07
Identities = 69/527 (13%), Positives = 130/527 (24%), Gaps = 192/527 (36%)
Query: 12 HYTHYNLSTVTQITMQQTMRTL------SFIAE-TCVFAYLGKNISISNTPILTSSTKKE 64
H+ H+++ T Q + + +F+ C K++ IL+
Sbjct: 1 HHHHHHMDFETG-EHQYQYKDILSVFEDAFVDNFDC------KDVQDMPKSILSKEEIDH 53
Query: 65 LLEQLPDIANNVTLAPIVVILPNSTTENGNVSSTSAPEPVLPEKGSAEEERNSSIAIFFV 124
++ D + + L + + FV
Sbjct: 54 IIMS-KDAVSGTLR--LFWTL---------------------------LSKQEEMVQKFV 83
Query: 125 LCVLAL--GILLIHFMLQFHFQYL-PESIAIVFLGALIGMIINLMSNKNIANWHKEETFS 181
VL + L M + P + +++ + + N N + F+
Sbjct: 84 EEVLRINYKFL----MSPIKTEQRQPSMMTRMYIEQR-----DRLYNDN-------QVFA 127
Query: 182 PTAFFLVLLPPI--IFESGYNLHKGNFFQNIGSILVFAIIGTTISAFVIGAGVYILGLAD 239
+ + L P + ++ L +L+ G V+G+G + D
Sbjct: 128 K--YNVSRLQPYLKLRQALLELRPAKN------VLID---G------VLGSGKTWV-ALD 169
Query: 240 VAYKLSFVESFAFG--------------------SLISAVDPVATVAIFHAL-------D 272
V F L+ +DP T H+
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 273 VDPVLNMLVFGESILNDAIAIVLTTSILGSDN-PNMTTWEAVLTGFNHFCLMFFASAGIG 331
+ L L + + +VL N N W A FN C + +
Sbjct: 230 IQAELRRL-LKSKPYENCL-LVL-------LNVQNAKAWNA----FNLSCKILLTTRFKQ 276
Query: 332 VLFALISALLLKYVDLRKNPSLEFGLMLVFTYAPYALAEGIHLSARTYSKTLVFLITGLA 391
V L +A + SL+ + T K+L+
Sbjct: 277 VTDFLSAAT-------TTHISLDH-HSMTLT--------------PDEVKSLLLKYLDCR 314
Query: 392 IFSFRHRVEPALVIWSLILCLVGRACNIFPLAI--LVNRFREHQITRRMMFIMW------ 443
P + + R+ T W
Sbjct: 315 PQDLPRE-----------------VLTTNPRRLSIIAESIRDGLAT-------WDNWKHV 350
Query: 444 -FSGLRGAISYALSLHLEFSDETRH-----------VIITSTLIIVL 478
L I +L+ LE E R I + L+ ++
Sbjct: 351 NCDKLTTIIESSLN-VLE-PAEYRKMFDRLSVFPPSAHIPTILLSLI 395
Score = 30.6 bits (68), Expect = 1.6
Identities = 26/188 (13%), Positives = 50/188 (26%), Gaps = 83/188 (44%)
Query: 368 LAEGIH-------LSARTYSKTLVFLITGLAIFSFRH--RVEPALVIWSLILCL------ 412
L I + R Y + L +F+ + R++P L L
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP---YLKLRQALLELRPA 150
Query: 413 ----------VGRACNIFPLAILVNRFREHQITRRMMF-IMWFS---------------- 445
G+ +A+ V +++ +M F I W +
Sbjct: 151 KNVLIDGVLGSGKTW----VALDV--CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK 204
Query: 446 ---------GLRGAISYALSLHLE-FSDETRHVIITS----TLII--------------- 476
R S + L + E R ++ + L++
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264
Query: 477 ---VLVTT 481
+L+TT
Sbjct: 265 SCKILLTT 272
>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 = 42.7 bits (100), Expect = 3e-04
Identities = 63/412 (15%), Positives = 107/412 (25%), Gaps = 161/412 (39%)
Query: 2 AILFNGIVMSHYTHYNLSTVTQITMQQTMRTL--SFIAETCVFAYLGKNISISNTPILTS 59
I I + HY VT + T L T + + ++ I +
Sbjct: 235 PISCPLIGVIQLAHY---VVTAKLLGFTPGELRSYLKGATGH----SQGL-VTAVAIAET 286
Query: 60 STKKELLEQLPDI--------------ANNVTLAPIVVILPNSTTENGNVSSTSAPEPVL 105
+ + + N +L P ++ + EN P P+L
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSIL---EDSLENNE----GVPSPML 339
Query: 106 PEKGSAEEERNSSIAIFFVLCVLALGILLIHFMLQFHFQYLPES--IAIVFLGALIGMII 163
+E+ + +LP + I +L+
Sbjct: 340 SISNLTQEQVQDYVNKTN--------------------SHLPAGKQVEI----SLV---- 371
Query: 164 NLMSNKNIANWHKEETFSPTAFFLVLL-PPIIFESGY----NLHKGNFFQNIGSILVFAI 218
N V+ PP +S Y L K A
Sbjct: 372 ---------N-------GAKNL--VVSGPP---QSLYGLNLTLRK-----------AKAP 399
Query: 219 IGTTISAFVIGAGVYILGLADVAY---KLSFVESFA-----FGS--LISAVDPVATVAIF 268
G S + + KL F F F S L+ A D + +
Sbjct: 400 SGLDQSR--------------IPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVK 445
Query: 269 HALDVD------PVL------NMLVFGESILNDAIAIVLTTSILGSDNPNMTTWEAVL-T 315
+ + + PV ++ V SI + ++ + WE
Sbjct: 446 NNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVK---------WETTTQF 496
Query: 316 GFNHFCLMF--FASAGIGVLFA---------LISALLLKYVDLRKNPSLEFG 356
H L F ++G+GVL +I A L NP ++G
Sbjct: 497 KATHI-LDFGPGGASGLGVLTHRNKDGTGVRVIVA-----GTLDINPDDDYG 542
Score = 40.4 bits (94), Expect = 0.002
Identities = 63/422 (14%), Positives = 125/422 (29%), Gaps = 123/422 (29%)
Query: 97 STSAPEPVLPEKGSAEEERNSSI---AIF--FV------LCVLALGILLIHFMLQFHFQY 145
+ PEP E +A++E + F +V V +L + +F Y
Sbjct: 38 NKILPEP--TEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCY 95
Query: 146 LPE----SIAIVFLGALIGMIINLMSNKNIANWHKEETFSPTAFF---LVLLPPIIFESG 198
L ++A L L+ K + + ++ P
Sbjct: 96 LEGNDIHALAAKLLQENDT---TLVKTKELI----------KNYITARIMAKRPF----- 137
Query: 199 YNLHKGNFFQNI--GSILVFAIIGTTISAFVIGAG---VYILGLADV--AYKLSFVESF- 250
F+ + G+ + AI G G G Y L D+ Y V
Sbjct: 138 DKKSNSALFRAVGEGNAQLVAIFG--------GQGNTDDYFEELRDLYQTYH-VLVGDLI 188
Query: 251 --AFGSLISAV-DPVATVAIF-HALDVDPVLN--MLVFGESILNDA-IA---IVLTTSIL 300
+ +L + + +F L++ L + L I+ I +
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQ--- 245
Query: 301 GSDNPNMTTWEAVL--TGFNHFCLMFFASAGIGVLFALISALLLKYVD----LRKNPSLE 354
+ + GF L + G L++A+ + D + +
Sbjct: 246 ------LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVS--VR 297
Query: 355 FGLMLVF--------TYAPYALAEGIHLSARTYSK---TLVFLITGLAIFSFRHRVEPAL 403
+ ++F Y +L I + ++ + + I+ L + +V+
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLT----QEQVQ--- 350
Query: 404 VIWSLILCLVGRACNIFP----LAI-LVNRFREHQITRRMMFIMWFSGLRGAISYALSLH 458
V + + P + I LVN + ++ SG ++ Y L+L
Sbjct: 351 -------DYVNKTNSHLPAGKQVEISLVN-------GAK-NLVV--SGPPQSL-YGLNLT 392
Query: 459 LE 460
L
Sbjct: 393 LR 394
Score = 37.3 bits (86), Expect = 0.014
Identities = 47/287 (16%), Positives = 80/287 (27%), Gaps = 109/287 (37%)
Query: 27 QQTMRTLSFIAETCVFAYLGKNI-------SISN-----TPILT-SSTKKELLEQLPDIA 73
++ + L FI C AY ++ S+ N +P+L+ S+ +E ++ +
Sbjct: 297 RKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKT 356
Query: 74 NNVTLAP---IVVILPNSTTEN---GNVSSTSAPEPVLPEKGSAEEERNSSIAIF----- 122
N+ L + + L N G S L K A + S F
Sbjct: 357 NS-HLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL-RKAKAPSGLDQSRIPFSERKL 414
Query: 123 -FVLCVLALGILLIHFMLQFHFQYL-------------------PESIAI-VFL------ 155
F L + FH L + I I V+
Sbjct: 415 KFSNRFLPVA-------SPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSD 467
Query: 156 -----GALIGMIINLMSNKNIANWHKEETFSPTAFFLVLLPPIIFESGYNLHKGNFFQNI 210
G++ I++ + + W F T H
Sbjct: 468 LRVLSGSISERIVDCIIRLPV-KWETTTQFKAT------------------H-------- 500
Query: 211 GSILVF-----AIIGTTISAFVIGAGVYILGLA---------DVAYK 243
IL F + +G G GV ++ +A D +K
Sbjct: 501 --ILDFGPGGASGLGVLTHRNKDGTGVRVI-VAGTLDINPDDDYGFK 544
>2l0e_A Sodium/hydrogen exchanger 1; transmembrane helix, membrane protein,
NHE1; NMR {Homo sapiens}
Length = 33
Score = 35.8 bits (82), Expect = 0.001
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 248 ESFAFGSLISAVDPVATVAIFHALDVD 274
++ FGS+ISAVDPVA +A+F +
Sbjct: 5 DNLLFGSIISAVDPVAVLAVFEEIHKK 31
>2htg_A NHE-1, NHE1 isoform of Na+/H+ exchanger 1, solute; membrane
protein, transmembrane segment, helix-KINK-helix; NMR
{Synthetic}
Length = 28
Score = 31.5 bits (71), Expect = 0.034
Identities = 13/23 (56%), Positives = 21/23 (91%)
Query: 273 VDPVLNMLVFGESILNDAIAIVL 295
++ +L++LVFGES+LNDA+ +VL
Sbjct: 2 INELLHILVFGESLLNDAVTVVL 24
>1y4e_A Sodium/hydrogen exchanger 1; NHE1 isoform, transmembrane, membrane
protein; HET: HSL; NMR {Homo sapiens}
Length = 27
Score = 27.9 bits (62), Expect = 0.57
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 180 FSPTAFFLVLLPPIIFESGYNL 201
FFL LLPPII ++GY L
Sbjct: 2 LQSDVFFLFLLPPIILDAGYFL 23
>3jqy_B NEUO, polysialic acid O-acetyltransferase; LEFT-handed beta-helix
polysia; HET: PEG; 1.70A {Escherichia coli}
Length = 252
Score = 30.9 bits (70), Expect = 0.83
Identities = 9/50 (18%), Positives = 14/50 (28%), Gaps = 2/50 (4%)
Query: 188 VLLPPIIFESGYNLHKG-NFFQNIGSILVFAIIGTTISAFV-IGAGVYIL 235
+ I+ G + G G +V TI I V +
Sbjct: 93 KIKGDIVATKGSKVIIGRRTTIGAGFEVVTDKCNVTIGHDCMIARDVILR 142
>2lc4_A PILP protein; type IV pilus, structural protein; NMR {Pseudomonas
aeruginosa}
Length = 111
Score = 28.2 bits (63), Expect = 2.6
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 11/55 (20%)
Query: 44 YLGKN----ISISNTPILTSSTKKELLEQLPDIANNVTLAPIVVILPNSTTENGN 94
YLG+N + IS I +++E +PD N P + L + E+ +
Sbjct: 61 YLGRNDGKVVGISEGKI-------DVIEIVPDGEGNWLERPRSLTLKERSLEHHH 108
>2kbv_A Sodium/hydrogen exchanger 1; transmembrane, peptide, NHE1, micelle,
alternative splicing, antiport, glycoprotein, ION
transport, membrane; NMR {Synthetic}
Length = 28
Score = 25.7 bits (56), Expect = 3.9
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 440 FIMWFSGLRGAISYALSLHLE 460
FI+ + GLRGAI+++L L+
Sbjct: 5 FIIAYGGLRGAIAFSLGYLLD 25
>2wlg_A Polysialic acid O-acetyltransferase; enzyme, LEFT-handed beta HEL;
HET: SOP; 1.90A {Neisseria meningitidis serogroup Y}
PDB: 2wld_A 2wle_A* 2wlf_A* 2wlc_A*
Length = 215
Score = 28.2 bits (63), Expect = 4.9
Identities = 9/74 (12%), Positives = 20/74 (27%), Gaps = 4/74 (5%)
Query: 167 SNKNIANWHKEETFSPTAFFLVLLPPIIFESGYNLHKGNFFQNIG-SILVFAIIGTTISA 225
SN + + + + L+ + + + N +I I +I
Sbjct: 48 SNIRLKGNNITLFIADDVEIMGLVCSLHSDCSLQIQAKTTMGNGEITIAEKGKI--SIGK 105
Query: 226 FV-IGAGVYILGLA 238
+ G I
Sbjct: 106 DCMLAHGYEIRNTD 119
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 28.3 bits (62), Expect = 8.0
Identities = 13/73 (17%), Positives = 26/73 (35%), Gaps = 3/73 (4%)
Query: 259 VDPVATVAIFHALDVDPVLNMLVFGESILNDAIAIVLTTSILGSDNPNMTTWEAVLTGFN 318
++P A I + + + +ML G ++ D ++ +D WE V+
Sbjct: 120 INPDANCLI---MTTEILRSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLP 176
Query: 319 HFCLMFFASAGIG 331
SA +
Sbjct: 177 QHVKFILLSATVP 189
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 27.7 bits (62), Expect = 9.8
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 327 SAGIGVLFALISAL 340
+A I V A+ISAL
Sbjct: 486 AASISVATAVISAL 499
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
0.327 0.139 0.404
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,747,253
Number of extensions: 477843
Number of successful extensions: 1079
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1075
Number of HSP's successfully gapped: 31
Length of query: 523
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 425
Effective length of database: 3,965,535
Effective search space: 1685352375
Effective search space used: 1685352375
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 59 (27.1 bits)