RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12149
(243 letters)
>3aon_A V-type sodium ATPase subunit D; V-ATPase, coiled-coil, alpha/beta
fold, hydrol Na(+)-ATPase, NTPA3-NTPB3, NTPC, central
AXIS; HET: MSE; 2.00A {Enterococcus hirae}
Length = 217
Score = 199 bits (507), Expect = 1e-64
Identities = 58/211 (27%), Positives = 104/211 (49%), Gaps = 2/211 (0%)
Query: 2 SGKERLPIFPSRGAQSLMKSRLKGAQKGHSLLKKKADALQMRFRMILSKIIETKTLMGEV 61
S RL + P+R + +K +L A +GH LLK K D L +F +++ K E + + +
Sbjct: 5 SSGMRLNVNPTRMELTRLKKQLTTATRGHKLLKDKQDELMRQFILLIRKNNELRQAIEKE 64
Query: 62 MKEAAFSLAEAKFTTGDFNQVVLQNVTKAQIKIRTKKDNVAGVTLPVFESYQDGT--DTY 119
+ A AK T + L + + I + N+ V +P+ D T +T
Sbjct: 65 TQTAMKDFVLAKSTVEEAFIDELLALPAENVSISVVEKNIMSVKVPLMNFQYDETLNETP 124
Query: 120 ELAGLARGGQQLAKLKKNYQTAIKLLVELASLQTSFVTLDDVIKITNRRVNAIEHVIIPR 179
G +L + + + L++LA ++ + + + I+ T RRVNA+E++ IP+
Sbjct: 125 LEYGYLHSNAELDRSIDGFTQLLPKLLKLAEVEKTCQLMAEEIEKTRRRVNALEYMTIPQ 184
Query: 180 IEKTLAYIISELDELEREEFYRLKKIQDKKK 210
+E+T+ YI +L+E ER E RL K+++
Sbjct: 185 LEETIYYIKMKLEENERAEVTRLIKVKNMGT 215
>3a5c_G V-type ATP synthase subunit D; V-ATPase, asymmetric, rotation,
vacuolar type, hydrolase, ATP synthesis, ATP-binding,
hydrogen ION transport; HET: ADP; 4.51A {Thermus
thermophilus} PDB: 3a5d_G 3j0j_G*
Length = 223
Score = 181 bits (460), Expect = 2e-57
Identities = 57/219 (26%), Positives = 104/219 (47%), Gaps = 3/219 (1%)
Query: 9 IFPSRGAQSLMKSRLKGAQKGHSLLKKKADALQMRFRMILSKIIETKTLMGEVMKEAAFS 68
+ P+R + +L+ AQKG LLKKK DAL F ++ + +E + + + KEA +
Sbjct: 4 VSPTRMNLLQRRGQLRLAQKGVDLLKKKRDALVAEFFGLVREAMEARKALDQAAKEAYAA 63
Query: 69 LAEAKFTTGDFNQVVLQNVTKAQIKIRTKKDNVAGVTLPVFESYQDGTDTYELAGLARGG 128
L A+ G + + +NV G +P ++ G
Sbjct: 64 LLLAQAFDGPEVVAGAALGVPPLEGVEAEVENVWGSKVPRLKATFPDGALLSPVGTPAYT 123
Query: 129 QQLAKLKKNYQTAIKLLVELASLQTSFVTLDDVIKITNRRVNAIEHVIIPRIEKTLAYII 188
+ ++ ++ + L+ +A+ +T + + IK T RRVNA+E V+IP I + +I
Sbjct: 124 LEASRA---FRRYAEALIRVANTETRLKKIGEEIKKTTRRVNALEQVVIPGIRAQIRFIQ 180
Query: 189 SELDELEREEFYRLKKIQDKKKVIKAASEAFRKSRKYDE 227
L++ ERE+ +RLK+I+ K + +A E R + + +
Sbjct: 181 QVLEQREREDTFRLKRIKGKIEAREAEEEGGRPNPQVEI 219
>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 = 44.8 bits (105), Expect = 2e-05
Identities = 27/248 (10%), Positives = 65/248 (26%), Gaps = 63/248 (25%)
Query: 16 QSL---MKSRLKGAQKGHSLLKKKADALQMRFRMILSKIIETKTLM-------GEVMKEA 65
Q L + S +K + ++Q R +L L+ +
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN-- 260
Query: 66 AFSLAEAK--FTTGDFNQVVLQNVTKAQIKIRTKKDNVAGVT----LPVFESYQDGTDTY 119
AF+L K TT V ++ A + + +T + Y
Sbjct: 261 AFNL-SCKILLTTRFKQ--VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCRPQ 316
Query: 120 ELAGLARGGQQLAKLKKNYQTAIKLLVELASLQTSFVTLDDVIKITNRRVNAIEHVIIPR 179
+L + ++ E I+ + +HV +
Sbjct: 317 DLPREVLTTNPRR---------LSIIAES-------------IRDGLATWDNWKHVNCDK 354
Query: 180 IEKTLAYIISELDELEREEFYRLKKIQDKKKVIKAASEAFRKSRKYDEEQAFNML----- 234
+ + ++ L+ E + + + F S +++
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSV-------------FPPSAHI-PTILLSLIWFDVI 400
Query: 235 EEEDQDIL 242
+ + ++
Sbjct: 401 KSDVMVVV 408
>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 = 43.5 bits (102), Expect = 4e-05
Identities = 43/240 (17%), Positives = 84/240 (35%), Gaps = 53/240 (22%)
Query: 43 RFRMILSKII---ETKTLMGEVMKEAAFSLAEAKFTTGDFNQVVLQNVTKAQIKIRTKKD 99
+F +L+ + E L G + A L + TT + +++N A+I + D
Sbjct: 79 QFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD 138
Query: 100 NVAGVTLPVFESYQDGTDTYELAGLAR--GGQ--------QLAKLKKNYQTAIKLLVELA 149
+ L F + +G A L GGQ +L L + Y + L++ +
Sbjct: 139 KKSNSAL--FRAVGEGN-----AQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFS 191
Query: 150 S--LQTSFVTLDDVIKITNRRVNA---IEH--------------VIIPRIEKT-LA-YII 188
+ L T D K+ + +N +E+ + P I LA Y++
Sbjct: 192 AETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV 251
Query: 189 S-ELDELEREEFYRLKK--IQDKKKVIKAASEAFRKSRKYDE--EQAFNMLEEEDQDILF 243
+ +L E K + ++ A A ++ ++ + +LF
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHSQGLVTAV--AIAETDSWESFFVSVRKAIT-----VLF 304
Score = 42.3 bits (99), Expect = 9e-05
Identities = 35/222 (15%), Positives = 64/222 (28%), Gaps = 82/222 (36%)
Query: 58 MGEVMKE-AAFSLAEAKFTTGD--------FN--QVVLQNVTKAQI--------KIRTKK 98
MG M A+ + D F+ +V+ N I +IR
Sbjct: 1631 MG--MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIR--- 1685
Query: 99 DNVAGVTLPVFESYQDGTD---------TYELAGLARGGQQLAKLKK--NYQTAIKLLVE 147
+N + + FE+ DG ++ L Q A+ L+E
Sbjct: 1686 ENYSAMI---FETIVDGKLKTEKIFKEINEHSTSYTFRSEK-GLLSATQFTQPAL-TLME 1740
Query: 148 LA--------------------SL--------QTSFVTLDDVIKITNRRVNAIEHVIIPR 179
A SL ++++ ++++ R ++ +PR
Sbjct: 1741 KAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVA-VPR 1799
Query: 180 IEKTLAYIISELDELEREEFYRLKKIQDKKKVIKAASEAFRK 221
DEL R Y + I + + EA +
Sbjct: 1800 ------------DELGRSN-YGMIAINPGRVAASFSQEALQY 1828
Score = 34.6 bits (79), Expect = 0.025
Identities = 52/310 (16%), Positives = 90/310 (29%), Gaps = 125/310 (40%)
Query: 15 AQSLMKSRLKGAQKGHSLLKKKADALQMRFRMI-------------LSKIIET-KTLMGE 60
A+ + K +K +S L + + I L + +T L+G+
Sbjct: 129 ARIMAKRPFD--KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGD 186
Query: 61 VMKEAAFSL---------AEAKFTTG-DFNQVVLQNVTKAQIKIRTKKDNV--AGVTLPV 108
++K +A +L AE FT G + + L+N + KD + ++ P+
Sbjct: 187 LIKFSAETLSELIRTTLDAEKVFTQGLNILEW-LENPSN-----TPDKDYLLSIPISCPL 240
Query: 109 -----FESY-----QDGTDTYELAGLARG----GQQL------------AKLKKNYQTAI 142
Y G EL +G Q L + + AI
Sbjct: 241 IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAI 300
Query: 143 KLL---------------VELASLQTS------------------FVTLDDVIKITNRRV 169
+L + + L+ S + D + TN +
Sbjct: 301 TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHL 360
Query: 170 NAIEHVII-----PRIEKTLAYIIS----ELDELEREEFYRLKKIQDKKKVIKAASEA-- 218
A + V I + ++S L L L+K KA S
Sbjct: 361 PAGKQVEISLVNGAK-----NLVVSGPPQSLYGLNL----TLRK-------AKAPSGLDQ 404
Query: 219 ----FRKSRK 224
F + RK
Sbjct: 405 SRIPFSE-RK 413
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 35.5 bits (81), Expect = 0.007
Identities = 10/57 (17%), Positives = 22/57 (38%), Gaps = 18/57 (31%)
Query: 188 ISELDELER--------------EEFY--RLKKIQDKKKVIKAASEAFRKSRKYDEE 228
+ ELD + EE+ + ++++ K + A +AF + D +
Sbjct: 98 LQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQP--DAD 152
Score = 27.8 bits (61), Expect = 2.5
Identities = 12/50 (24%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 188 ISELDELEREEFYRLKKIQDK-KKVIKAASEAFRKSRKYDEEQAFNMLEE 236
I++ D L +E ++K +++ +K ++ A + + E+A LEE
Sbjct: 74 IAQADRL-TQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEE 122
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 30.6 bits (69), Expect = 0.59
Identities = 11/88 (12%), Positives = 30/88 (34%), Gaps = 6/88 (6%)
Query: 119 YELAGLARGGQQLAKLKKNYQTAIKLLVELASLQTSFVTLDDVI-KITNRRVNAIEHV-- 175
+ L + K K + L+ A L+ + ++ N++ I
Sbjct: 301 MKKEDLPAEAHSIIKECKGSPLVVSLIG--ALLRDFPNRWAYYLRQLQNKQFKRIRKSSS 358
Query: 176 -IIPRIEKTLAYIISELDELEREEFYRL 202
+++ ++ + L E ++ + L
Sbjct: 359 YDYEALDEAMSISVEMLREDIKDYYTDL 386
>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 = 29.1 bits (64), Expect = 0.88
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 13/33 (39%)
Query: 195 EREEFYRLKKIQDKKKV----------IKAASE 217
E++ LKK+Q K+ IKA E
Sbjct: 18 EKQA---LKKLQASLKLYADDSAPALAIKATME 47
Score = 28.8 bits (63), Expect = 0.94
Identities = 10/28 (35%), Positives = 12/28 (42%), Gaps = 9/28 (32%)
Query: 129 QQLAKLK---KNYQT------AIKLLVE 147
Q L KL+ K Y AIK +E
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKATME 47
>1j0h_A Neopullulanase; beta-alpha-barrels, hydrolase; 1.90A {Geobacillus
stearothermophilus} SCOP: b.1.18.2 b.71.1.1 c.1.8.1 PDB:
1j0i_A* 1j0j_A* 1j0k_A* 1sma_A 1gvi_A*
Length = 588
Score = 28.9 bits (65), Expect = 1.5
Identities = 8/29 (27%), Positives = 16/29 (55%)
Query: 92 IKIRTKKDNVAGVTLPVFESYQDGTDTYE 120
+++RTKKD++ V L + Y ++
Sbjct: 25 LRLRTKKDDIDRVELLHGDPYDWQNGAWQ 53
>3sks_A Putative oligoendopeptidase F; structural genomics, center for
structural genomics of infec diseases, csgid, protease,
hydrolase; 2.05A {Bacillus anthracis}
Length = 567
Score = 28.5 bits (64), Expect = 2.2
Identities = 16/144 (11%), Positives = 41/144 (28%), Gaps = 27/144 (18%)
Query: 125 ARGGQQLAKLKKNYQTAIKLLVEL---ASLQTSFVTLDDVIKITNRRVNAIEHVIIPRIE 181
A+ ++ ++ + + ++ S T D K + V+
Sbjct: 33 AKTVEEQKQVIHSINEIRNDFGTMGNLCYIRHSVDTTDAFYKEEQDFFDEFSPVVQGYGT 92
Query: 182 KTLAYIISELDELEREEFYRLKKIQDKKKVIKAASEA--------FRKSRKYDE------ 227
K +I E E +Y + + +K S+ + S +Y +
Sbjct: 93 KYYNALIHSPFREELEAYYGKQLFALAECDLKTYSDEVVKDLQLENKLSSQYTQLLASAK 152
Query: 228 ----------EQAFNMLEEEDQDI 241
Q ++ +++
Sbjct: 153 IDFAGEERTLSQLIPFMQGKERSE 176
>1olm_A SEC14-like protein 2; lipid-binding protein, cholesterol
biosynthesis, oxidized vitamin E, lipid-binding,
transport, transcription regulation; HET: VTQ; 1.95A
{Homo sapiens} SCOP: a.5.3.1 b.132.1.1 c.13.1.1 PDB:
1o6u_A* 1olm_E*
Length = 403
Score = 28.0 bits (62), Expect = 2.7
Identities = 8/54 (14%), Positives = 26/54 (48%), Gaps = 5/54 (9%)
Query: 188 ISELDELEREEFYRLKK-IQDKKKVIKAASEA----FRKSRKYDEEQAFNMLEE 236
+ +L ++E + ++ +QD + + + ++R +D +++ ML +
Sbjct: 5 VGDLSPRQKEALAKFRENVQDVLPALPNPDDYFLLRWLRARSFDLQKSEAMLRK 58
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 28.1 bits (62), Expect = 3.8
Identities = 34/208 (16%), Positives = 70/208 (33%), Gaps = 15/208 (7%)
Query: 43 RFRMIL--SKIIETKTLMGEVMKEAAFSLAEAKFTTGDFNQVVLQNVTKAQIKIRTKKDN 100
R + IL +K I+T +L +M A ++ AK L VT A +I D
Sbjct: 1103 RLKEILNVAKNIKTPSLTIYLMPWIAANMDLAKNVQTQIEHTTLSTVTSA-TEIHYDPDP 1161
Query: 101 VAGVTLP---VFESYQDGTDTYELAGLARGGQQLAKLKKNYQTAIKLLVELASLQTSF-V 156
V E++ D L + L +L+ + + + ++ +
Sbjct: 1162 QDTVIEEDKDFVEAFFAIPDEEVEENLYKQSPWLLRLELDRAKMLDKKLSMSDVAGKIAE 1221
Query: 157 TLDDVIKITNRRVNAIEHVIIPRIEKTLAYIISELDELEREEFYRLKKIQD-----KKKV 211
+ + + NA + +I RI + + D + E+ + +
Sbjct: 1222 SFERDLFTIWSEDNADKLIIRCRIIRDDDRKAEDDDNMIEEDVFLKTIEGHMLESISLRG 1281
Query: 212 IKAASEAF---RKSRKYDEEQAFNMLEE 236
+ + + K + E+ F +E
Sbjct: 1282 VPNITRVYMMEHKIVRQIEDGTFERADE 1309
>1wzl_A Alpha-amylase II; pullulan, GH-13, alpha-amylase family, hydrolase;
2.00A {Thermoactinomyces vulgaris} SCOP: b.1.18.2
b.71.1.1 c.1.8.1 PDB: 1ji2_A 1bvz_A 1vfk_A* 3a6o_A*
1wzm_A 1jf6_A 1wzk_A 2d2o_A* 1jib_A* 1jl8_A* 1vb9_A*
1g1y_A* 1vfo_A* 1vfm_A* 1vfu_A* 1jf5_A
Length = 585
Score = 27.7 bits (62), Expect = 3.8
Identities = 7/38 (18%), Positives = 15/38 (39%)
Query: 92 IKIRTKKDNVAGVTLPVFESYQDGTDTYELAGLARGGQ 129
+++R KK +V + + Y + A + G
Sbjct: 25 VRLRAKKGDVVRCEVLYADRYASPEEELAHALAGKAGS 62
>3u5c_P 40S ribosomal protein S15; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_R 3o30_I 3o2z_I 3u5g_P 1s1h_S 3jyv_S*
Length = 142
Score = 26.5 bits (59), Expect = 4.8
Identities = 6/41 (14%), Positives = 14/41 (34%)
Query: 1 MSGKERLPIFPSRGAQSLMKSRLKGAQKGHSLLKKKADALQ 41
MS ++ + + P+R + + L+ A
Sbjct: 28 MSTEDFVKLAPARVRRRFARGMTSKPAGFMKKLRAAKLAAP 68
>3tbi_B DNA-directed RNA polymerase subunit beta; transcription accessory
protein, transcription; 3.00A {Escherichia coli}
Length = 228
Score = 26.9 bits (60), Expect = 4.9
Identities = 13/61 (21%), Positives = 26/61 (42%), Gaps = 3/61 (4%)
Query: 166 NRRVNAIEHVIIPRIEKTLAYIISELDELEREEFYRLKKIQDKKKVIKAASEAFRKSRKY 225
++R IE + + + +K L+ EL LE F R++ + V + + R
Sbjct: 113 DKRALEIEEMQLKQAKKDLS---EELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWL 169
Query: 226 D 226
+
Sbjct: 170 E 170
>2qr4_A Peptidase M3B, oligoendopeptidase F; structural genomics, PSI-2,
protein ST initiative; 2.50A {Enterococcus faecium}
Length = 587
Score = 26.9 bits (60), Expect = 6.5
Identities = 15/120 (12%), Positives = 45/120 (37%), Gaps = 11/120 (9%)
Query: 124 LARGGQQLAKLKKNYQTAIKLLVEL---ASLQTSFVTLDDVIKITNRRVNAIEHVIIPRI 180
L +G Q + + + A L+ T + + R +++ ++
Sbjct: 29 LDQGASQFLNAIEFVLRVYRQTEVIYVYAHLKNDQDTGNTDYQALYARASSL----FSKV 84
Query: 181 EKTLAYIISELDELEREEFYRLKKIQDKKKVIKAASEAFRKSRKY----DEEQAFNMLEE 236
+ +++ E+ +L ++ ++ K + K +V + + +R + ++E E
Sbjct: 85 SEAVSWFEPEILQLSDDQIWQYFKEEPKLEVYRHYIQQIVDNRAHVLSAEQESLLAGAGE 144
>3g5o_A Uncharacterized protein RV2865; heterotetramer, 1:1 ratio,
structural genomics, PSI-2, prote structure initiative;
2.00A {Mycobacterium tuberculosis}
Length = 108
Score = 25.3 bits (55), Expect = 9.3
Identities = 8/67 (11%), Positives = 20/67 (29%)
Query: 173 EHVIIPRIEKTLAYIISELDELEREEFYRLKKIQDKKKVIKAASEAFRKSRKYDEEQAFN 232
+ + I + A ++ + +E ++ I A R Y E++
Sbjct: 32 DQITITKNGAPAAVLVGADEWESLQETLYWLAQPGIRESIAEADADIASGRTYGEDEIRA 91
Query: 233 MLEEEDQ 239
+
Sbjct: 92 EFGVPRR 98
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 0.346
Gapped
Lambda K H
0.267 0.0467 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,587,773
Number of extensions: 219556
Number of successful extensions: 610
Number of sequences better than 10.0: 1
Number of HSP's gapped: 597
Number of HSP's successfully gapped: 51
Length of query: 243
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 152
Effective length of database: 4,160,982
Effective search space: 632469264
Effective search space used: 632469264
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: 56 (26.0 bits)