RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1054
(467 letters)
>1win_A Flotillin 2; BAND 7 domain, structural genomics, riken structural
genomics/proteomics initiative, RSGI, cell adhesion; NMR
{Mus musculus} SCOP: d.43.2.1
Length = 143
Score = 107 bits (269), Expect = 5e-28
Identities = 77/115 (66%), Positives = 90/115 (78%), Gaps = 9/115 (7%)
Query: 35 TDVQRISL---------EDVETLQGVPVTVTGTAQVKIMKAEELIQSASEQFLGKSKEEI 85
+ QRISL EDVET +GV +TVTG AQVKIM +EL+ A EQFLGK+ ++I
Sbjct: 5 SSGQRISLEIMTLQPRCEDVETAEGVALTVTGVAQVKIMTEKELLAVACEQFLGKNVQDI 64
Query: 86 QKTILHTLEGHLRAILGTLTVEEIVKDRDQFASLVREVAAPDVGRMGIEILSFTI 140
+ +L TLEGHLR+ILGTLTVE+I +DRDQFA LVREVAAPDVGRMGIEILSFTI
Sbjct: 65 KNVVLQTLEGHLRSILGTLTVEQIYQDRDQFAKLVREVAAPDVGRMGIEILSFTI 119
Score = 68.7 bits (168), Expect = 3e-14
Identities = 42/77 (54%), Positives = 53/77 (68%), Gaps = 9/77 (11%)
Query: 217 TDVQRISL---------EDVETLQGVPVTVTGTAQVKIMKAEELIQSASEQFLGKSKEEI 267
+ QRISL EDVET +GV +TVTG AQVKIM +EL+ A EQFLGK+ ++I
Sbjct: 5 SSGQRISLEIMTLQPRCEDVETAEGVALTVTGVAQVKIMTEKELLAVACEQFLGKNVQDI 64
Query: 268 QKTILHTLEGHLRAILA 284
+ +L TLEGHLR+IL
Sbjct: 65 KNVVLQTLEGHLRSILG 81
>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 = 72.0 bits (176), Expect = 2e-13
Identities = 84/519 (16%), Positives = 158/519 (30%), Gaps = 160/519 (30%)
Query: 35 TDVQRISLEDVET--LQG-----VPVTVTGTAQVKIMKAEELIQS--ASEQFLGKSKEEI 85
V + L + E L+G + + ++K +ELI++ + + ++
Sbjct: 81 DQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK 140
Query: 86 QKTIL--HTLEGHLR--AILG-----TLTVEE----------IVKD-----RDQFASLVR 121
+ L EG+ + AI G EE +V D + + L+R
Sbjct: 141 SNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIR 200
Query: 122 EVA-APDVGRMGIEILSFTIGEEAECEKSAMDIKYATDSKIENNARLFKL----QKASFD 176
A V G+ IL + +K + S L Q A +
Sbjct: 201 TTLDAEKVFTQGLNILEWLENPSNTPDKDYLL--SIPIS--------CPLIGVIQLAHYV 250
Query: 177 AEISTAFLNPCCLLVVSGGCCGHTKKLTV------VGGWA-----------WAWWMVTDV 219
P L G GH++ L W +++
Sbjct: 251 VTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRC 310
Query: 220 Q----RISL------EDVETLQGVP---VTVTGTAQVKIMKAEELIQSASEQFLGKSKEE 266
SL + +E +GVP ++++ ++E+
Sbjct: 311 YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNL----------------------TQEQ 348
Query: 267 IQKTILHTLEGHLRAILAPLAKTEEIVLLGGNDH--VT---NDITRLVAQLPPAVQALTG 321
+Q + T HL P K EI L+ G + V+ + L L +A +G
Sbjct: 349 VQDYVNKT-NSHL-----PAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLR-KAKAPSG 401
Query: 322 VDISKIQRREKELTATVK-LPAEA---ECYRLETLAEAKKIQSIELAKAE-AWKIKSQGL 376
+D S+I E++L + + LP + L A + + +L K ++ K
Sbjct: 402 LDQSRIPFSERKLKFSNRFLPVASPFHSHL----LVPASDLINKDLVKNNVSFNAKD--- 454
Query: 377 ADATASEALGRAEADRMRLKAQVFKQYGDAAVM-ALVLDALPKIAAEV--------AAPL 427
++ V+ + D + + L +I +
Sbjct: 455 ------------------IQIPVYDTF-DGSDLRVLSGSISERIVDCIIRLPVKWETTTQ 495
Query: 428 AKTEEIVLLG-GNDHVTNDITRLVAQLPPAVQALTGVDI 465
K I+ G G + + L + TGV +
Sbjct: 496 FKATHILDFGPGG---ASGLGVLTHRN---KDG-TGVRV 527
Score = 45.0 bits (106), Expect = 5e-05
Identities = 42/250 (16%), Positives = 74/250 (29%), Gaps = 106/250 (42%)
Query: 49 QGVP-VTVTGTAQVKIMKAEELIQSASEQFLGKSKEEIQKTILHTLEGH---LRAILGTL 104
Q P +T+ A + +K++ LI + + F G H+L G L ++ +
Sbjct: 1733 Q--PALTLMEKAAFEDLKSKGLIPADA-TFAG-----------HSL-GEYAALASLADVM 1777
Query: 105 TVE---EIVKDR----------DQFASLVREVAAPDVGRMGIEILSFTIGEEAECEKSAM 151
++E E+V R D+ + A + GR+ + +EA +
Sbjct: 1778 SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAA-----SFSQEA-LQYVVE 1831
Query: 152 DIKYATDSKIE--NNARLFKLQKASFDAEISTAFLNPCCLLVVSGGCCGHTKKLTVVGGW 209
+ T +E N N V G
Sbjct: 1832 RVGKRTGWLVEIVN--------------------YN----------VENQQ---YVAAG- 1857
Query: 210 AWAWWMVTDVQRISLEDVETLQGVPVTVTGTAQVKIMKAEELIQSASEQFLGKSKEEIQK 269
L ++T+ V +K+ K + I + S EE+
Sbjct: 1858 -------------DLRALDTVTNV------LNFIKLQKID--IIELQKSL---SLEEV-- 1891
Query: 270 TILHTLEGHL 279
EGHL
Sbjct: 1892 ------EGHL 1895
Score = 43.1 bits (101), Expect = 2e-04
Identities = 57/355 (16%), Positives = 109/355 (30%), Gaps = 135/355 (38%)
Query: 49 QGVPVTVTGTAQVKIMKAEELIQSASEQFLGKSKEEIQKTILHTLEGHLRAILGTLTVEE 108
QG +Q + M +L +++ + + + + + H + G ++ +
Sbjct: 1624 QG--------SQEQGM-GMDLYKTS----------KAAQDVWNRADNHFKDTYG-FSILD 1663
Query: 109 IVKDRDQFASLVREVAAPDVGRMGIEILSFTIGEEAECEK-SAMDIKYATDSKIENNARL 167
IV + + G G I E SAM + D K++ ++
Sbjct: 1664 IVINNP------VNLTIHFGGEKGKRIR----------ENYSAMIFETIVDGKLKTE-KI 1706
Query: 168 FKLQKASFDAEIST-AFLNPCCLLVVSGGCCGHTKKLTVVGGWAWAWWMVTDVQRISLED 226
FK + ++ F + LL T
Sbjct: 1707 FK----EINEHSTSYTFRSEKGLL-----------SAT---------------------- 1729
Query: 227 VETLQGVP-VTVTGTAQVKIMKAEELIQSASEQFLGKSKEEIQKTILHTLEGHLRAILA- 284
+ Q P +T+ A + +K++ LI + + F G H+L G A LA
Sbjct: 1730 -QFTQ--PALTLMEKAAFEDLKSKGLIPADA-TFAG-----------HSL-GEYAA-LAS 1772
Query: 285 -----PLAKTEEIVLLGG--------NDHVTNDITRLVAQLPPAVQALTGVD-----ISK 326
+ E+V G D + ++A P V A + + +
Sbjct: 1773 LADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVER 1832
Query: 327 IQRREKELTATV-------------KLPAEAECYRLETLAEA---KKIQSIELAK 365
+ +R L V L A L+T+ K+Q I++ +
Sbjct: 1833 VGKRTGWLVEIVNYNVENQQYVAAGDLRA------LDTVTNVLNFIKLQKIDIIE 1881
Score = 41.6 bits (97), Expect = 6e-04
Identities = 42/238 (17%), Positives = 70/238 (29%), Gaps = 69/238 (28%)
Query: 248 AEELIQSASE---QFLGKSKEEIQKTILHTLEGHLRAILAPLAKTEEIVLLGGND-HVTN 303
A++ + +E +FLG ++ + + + L L E L GND H
Sbjct: 50 ADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF----ENCYLEGNDIHA-- 103
Query: 304 DITRLVAQLPPAVQALTGVDISKIQRREKELTATVKLPAEAECYRLETLAEA-----KKI 358
L A+L + + KEL + Y + A KK
Sbjct: 104 ----LAAKLLQ--------ENDTTLVKTKEL---------IKNY-ITARIMAKRPFDKKS 141
Query: 359 QSIELAKAEAWKIKS------QGLADATASEALGRAEADRMRLKAQVFKQYGDAAVMALV 412
S + QG D E +R +++ Y +
Sbjct: 142 NSALFRAVGEGNAQLVAIFGGQGNTDDYFEE---------LR---DLYQTYHV------L 183
Query: 413 LDALPKIAAEVAAPLAKTEEIVLLGGNDHVTN--DITRLV--AQLPPAVQALTGVDIS 466
+ L K +AE + L +T T +I + P L + IS
Sbjct: 184 VGDLIKFSAETLSELIRTTL----DAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS 237
Score = 31.6 bits (71), Expect = 0.68
Identities = 15/90 (16%), Positives = 26/90 (28%), Gaps = 31/90 (34%)
Query: 394 RLKAQVFKQYGDAAVMALVLDALPKIAAEVAA-------------PLAKTEEIVL----- 435
+L+ Q F + D P AE+ + + ++++
Sbjct: 32 QLQEQ-FNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE 90
Query: 436 -----LGGND-HVTNDITRLVAQLPPAVQA 459
L GND H L A+L
Sbjct: 91 FENCYLEGNDIHA------LAAKLLQENDT 114
>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 = 52.2 bits (124), Expect = 3e-07
Identities = 66/401 (16%), Positives = 130/401 (32%), Gaps = 120/401 (29%)
Query: 93 LEGHLRAILGTLTVEEIVKDRDQFASLVR-------------EVAAPDVGRMGIEILSFT 139
++ ++IL ++ I+ +D + +R + +V R+ + L
Sbjct: 38 VQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSP 97
Query: 140 IGEEAECEKSAMDIKYATD-SKIENNARLF------------KLQKASFDAEISTAFLNP 186
I E + S M Y ++ N+ ++F KL++A + L P
Sbjct: 98 IKTEQR-QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE-------LRP 149
Query: 187 CCLLVVSG--GCCGHTKKLTVVGGWAWAWWMVTDVQRISLEDVETLQGVP-----VTV-- 237
+++ G G G K W+ DV + + + +
Sbjct: 150 AKNVLIDGVLG-SG--K-----------TWVALDV----CLSYKVQCKMDFKIFWLNLKN 191
Query: 238 TGTAQVKIMKAEELIQSASEQFLGKSKEEIQKTI---LHTLEGHLRAILA-PLAKTEEIV 293
+ + + ++L+ + S+ + I +H+++ LR +L + +V
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNW--TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV 249
Query: 294 LLGGNDHVTN-------DI-------TRLVAQLPPAVQALTGVDISKIQRRE-------K 332
L +V N ++ TR Q+ + A T IS K
Sbjct: 250 L----LNVQNAKAWNAFNLSCKILLTTR-FKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304
Query: 333 ELTATV------KLPAEAEC----YRLETLAEAKKIQSIELAKAEAWK-IKSQGLADATA 381
L LP E RL +AE+ + LA + WK + L
Sbjct: 305 SLLLKYLDCRPQDLPREV-LTTNPRRLSIIAESIR---DGLATWDNWKHVNCDKLTTIIE 360
Query: 382 S--EALGRAEADRMRLKAQVFKQYG----DAAVMALVLDAL 416
S L E R ++F + A + ++L +
Sbjct: 361 SSLNVL---EPAEYR---KMFDRLSVFPPSAHIPTILLSLI 395
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug
design, transferase; 2.35A {Human immunodeficiency virus
2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Length = 555
Score = 35.5 bits (82), Expect = 0.041
Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 7/59 (11%)
Query: 303 NDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKLPAEAECYRLETLAEAKKI 358
NDI +LV L A Q G+ ++ + LT V+ AE E L E + I
Sbjct: 255 NDIQKLVGVLNWAAQLYPGIKTKHLCRLISGKMTLTEEVQWTELAE---AE-LEENRII 309
>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor,
AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA
recombination; HET: T27; 1.80A {Human immunodeficiency
virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B*
3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B*
3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B*
1n5y_B* 1bqm_B* 1n6q_B* ...
Length = 428
Score = 34.8 bits (80), Expect = 0.060
Identities = 24/59 (40%), Positives = 32/59 (54%), Gaps = 7/59 (11%)
Query: 303 NDITRLVAQLPPAVQALTGVDIS---KIQRREKELTATVKLPAEAECYRLETLAEAKKI 358
NDI +LV +L A Q G+ + K+ R K LT + L EAE LE LAE ++I
Sbjct: 255 NDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPLTEEAE---LE-LAENREI 309
>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 = 33.0 bits (74), Expect = 0.095
Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 21/43 (48%)
Query: 328 QRRE-KELTATVKL------PAEAECYRLETLAEAKKIQ-SIE 362
+++ K+L A++KL PA LA I+ ++E
Sbjct: 18 EKQALKKLQASLKLYADDSAPA---------LA----IKATME 47
Score = 33.0 bits (74), Expect = 0.10
Identities = 7/29 (24%), Positives = 13/29 (44%), Gaps = 11/29 (37%)
Query: 264 KEEIQKTILHTLEGHLRAILAP-----LA 287
K+ ++K L+ L+ + A LA
Sbjct: 19 KQALKK-----LQASLK-LYADDSAPALA 41
Score = 30.3 bits (67), Expect = 0.72
Identities = 8/36 (22%), Positives = 14/36 (38%), Gaps = 17/36 (47%)
Query: 82 KEEIQKTILHTLEGHLR----------AILGTLTVE 107
K+ ++K L+ L+ AI T+E
Sbjct: 19 KQALKK-----LQASLKLYADDSAPALAI--KATME 47
Score = 29.9 bits (66), Expect = 1.1
Identities = 8/36 (22%), Positives = 16/36 (44%), Gaps = 10/36 (27%)
Query: 147 EKSAMDIKYATDSKIENNARLFKLQKA---SFDAEI 179
EK A +K K++ + +L+ A + A +
Sbjct: 18 EKQA--LK-----KLQASLKLYADDSAPALAIKATM 46
Score = 28.4 bits (62), Expect = 3.0
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 394 RLKAQVFKQYGDAAVMALVLDA 415
+L+A + K Y D + AL + A
Sbjct: 24 KLQASL-KLYADDSAPALAIKA 44
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 29.4 bits (65), Expect = 3.1
Identities = 25/150 (16%), Positives = 56/150 (37%), Gaps = 7/150 (4%)
Query: 317 QALTGVDISKIQRREKELTATVKLPAEAE-----CYRLETLAEAKKIQSIELAKAEAWKI 371
+A + ++++ + K+ ++E LE A + ++S AKAEA
Sbjct: 670 EAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESR 729
Query: 372 KSQGL--ADATASEALGRAEADRMRLKAQVFKQYGDAAVMALVLDALPKIAAEVAAPLAK 429
+ + +A +A+A + +A++ + + + A ++ A LA
Sbjct: 730 AEAARIEGEGSVLQAKLKAQALAIETEAELERVKKVREMELIYARAQLELEVSKAQQLAN 789
Query: 430 TEEIVLLGGNDHVTNDITRLVAQLPPAVQA 459
E + + R +A P +Q
Sbjct: 790 VEAKKFKEMTEALGPGTIRDLAVAGPEMQV 819
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 3.2
Identities = 6/53 (11%), Positives = 18/53 (33%), Gaps = 13/53 (24%)
Query: 65 KAEELIQSAS---EQFLGKSKEEIQKTILHTLEGHLRAILGTLTVEEIVKDRD 114
+E + A E++ + E+++K ++ + + D
Sbjct: 108 MEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIAD----------KAFYQQPD 150
>1stz_A Heat-inducible transcription repressor HRCA homol; circe element,
structural genomics, BSGC structure FUN NIH, protein
structure initiative; 2.20A {Thermotoga maritima} SCOP:
a.4.5.51 d.110.2.3
Length = 338
Score = 28.7 bits (65), Expect = 4.6
Identities = 19/93 (20%), Positives = 42/93 (45%), Gaps = 8/93 (8%)
Query: 235 VTVTGTAQVKIMK------AEELIQSASEQFLGKSKEEIQKTILHTL--EGHLRAILAPL 286
+T G ++V +K EE+ + + G++ E+ + +L G LR I + +
Sbjct: 165 LTEFGVSKVTPIKTQERLNWEEIERQLNFLLRGRTVGEVLMGKIESLKGSGFLRLIESLI 224
Query: 287 AKTEEIVLLGGNDHVTNDITRLVAQLPPAVQAL 319
+T E L G +++ D T + + ++ +
Sbjct: 225 GETVERYLDAGLENLLKDETLTLEDIRNLLEEV 257
>1ggl_A Protein (cellular retinol-binding protein III); carrier, transport
protein; 2.31A {Homo sapiens} SCOP: b.60.1.2
Length = 134
Score = 27.2 bits (60), Expect = 6.4
Identities = 9/49 (18%), Positives = 16/49 (32%)
Query: 137 SFTIGEEAECEKSAMDIKYATDSKIENNARLFKLQKASFDAEISTAFLN 185
F +G E E + ++D + L +QK +L
Sbjct: 63 QFDVGVEFEEDLRSVDGRKCQTIVTWEEEHLVCVQKGEVPNRGWRHWLE 111
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 0.131 0.375
Gapped
Lambda K H
0.267 0.0818 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,064,297
Number of extensions: 440132
Number of successful extensions: 1338
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1323
Number of HSP's successfully gapped: 40
Length of query: 467
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 370
Effective length of database: 3,993,456
Effective search space: 1477578720
Effective search space used: 1477578720
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: 59 (26.3 bits)