RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2153
(325 letters)
>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 = 52.0 bits (124), Expect = 1e-07
Identities = 56/321 (17%), Positives = 94/321 (29%), Gaps = 103/321 (32%)
Query: 54 HTVTLGLPHHSVRSLAAVYNKVWCGYKNKIHVVDP--KSLKS--FDAHPRRESQVRQMTW 109
H + L + +L + +I P K S F A +Q+
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL----V 157
Query: 110 A---GDGVWVSIRLDSTLR-MYNAHTYQHL---------------------------QDV 138
A G G + LR +Y TY L Q +
Sbjct: 158 AIFGGQGN-TDDYFEE-LRDLYQ--TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 139 DI------------EPY-----VS-KMLGMYTFCS-CVTIRTLLAETIISPFGWYANNPA 179
+I + Y +S ++G+ VT + L G+
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLL---------GFTPGELR 264
Query: 180 DILESFTVCQSHLL---CIASVPGTGKLGFSFVRITALLISSSRLWIGTASGKAPSGVRV 236
L+ T L+ IA + + SF I+ +IG +A
Sbjct: 265 SYLKGATGHSQGLVTAVAIAET-DSWE---SFFVSVRKAITVL-FFIGVRCYEA---YPN 316
Query: 237 FSEPATSV---ITPGTFIPYCSMAQAQLSFHG-HRDAVKFFVSVPGSGGLSAATSVPQDC 292
S P + + + +P M LS ++ V+ +V+ + +P
Sbjct: 317 TSLPPSILEDSLENNEGVP-SPM----LSISNLTQEQVQDYVN-------KTNSHLPAGK 364
Query: 293 PV-IENVSGTEKPPSMLVMSG 312
V I V+G LV+SG
Sbjct: 365 QVEISLVNG----AKNLVVSG 381
Score = 43.9 bits (103), Expect = 7e-05
Identities = 54/289 (18%), Positives = 83/289 (28%), Gaps = 116/289 (40%)
Query: 9 YPLNKILDTALPPVHVQGRVVCALADG--------SVAIFRRGPDGQWDLSKYHTVT-LG 59
YP +T+LPP ++ +L + S+ Q + Y T
Sbjct: 314 YP-----NTSLPPSILED----SLENNEGVPSPMLSI----SNLT-QEQVQDYVNKTNSH 359
Query: 60 LPHHSVRSLAAVYNKVWCGYKNKIHVV--DPKSLKSFDAHPRRESQVRQMTWAGDGVWVS 117
LP ++ + N G KN VV P+SL + R+ A G
Sbjct: 360 LPAGKQVEIS-LVN----GAKN--LVVSGPPQSLYGLNLTLRKAK-------APSG---- 401
Query: 118 IRLDST--------LRMYNA--------HTYQHLQDV----------DIEPYVSKMLGM- 150
LD + L+ N H+ L + + +K + +
Sbjct: 402 --LDQSRIPFSERKLKFSNRFLPVASPFHS-HLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 151 -YTFCSCVTIRTL-------LAETIIS-PFGWYANNPADILESFTVCQSHLLCIASVPGT 201
Y +R L + + II P W +H+L G
Sbjct: 459 VYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKA--------THILDF----GP 506
Query: 202 GKLGFSFVRITALLISSSRLWIGTASGKAPSGVRVFSEPATSVITPGTF 250
G + L + R GT GVR VI GT
Sbjct: 507 GGAS----GLGVL---THRNKDGT-------GVR--------VIVAGTL 533
Score = 31.9 bits (72), Expect = 0.31
Identities = 43/297 (14%), Positives = 78/297 (26%), Gaps = 129/297 (43%)
Query: 48 WDLSKYHTV-TLGLPHHSVRSLAAVYNKVWCGYKNKIHVVDPKSLK-SFDAHPRRESQVR 105
W+ + H T G S+ I + +P +L F + ++R
Sbjct: 1646 WNRADNHFKDTYGF------SIL------------DIVINNPVNLTIHFG--GEKGKRIR 1685
Query: 106 QMTWAGDGVWVSIRLDSTLRMYNAHTYQHLQD-----VDIEPYVSKMLGMYTFCSCVTIR 160
+ Y+A ++ + D I +++ YTF
Sbjct: 1686 EN-------------------YSAMIFETIVDGKLKTEKIFKEINEHSTSYTF------- 1719
Query: 161 TLLAETIISPFGWYANNPADILE--SFTVCQSHLLCIASVPGTGKLGFSFVRITALLISS 218
+ +L FT Q P AL +
Sbjct: 1720 ---------------RSEKGLLSATQFT--Q---------P-------------ALTLME 1740
Query: 219 S---RLWIGTASGKAPSGVRVF---S--EPATSVITPGTFIPY---CSMAQAQLSFHGHR 267
+ G P+ F S E Y S+A +S
Sbjct: 1741 KAAFEDL--KSKGLIPADA-TFAGHSLGE-------------YAALASLADV-MSI---E 1780
Query: 268 DAVKFFVSVPGSGGLSAATSVPQDCPVIENVSGTEKPPSMLVMSGGEGYIDFRIARL 324
V+ V G ++ +VP+D N P + S + + + + R+
Sbjct: 1781 SLVEV-VFYRG---MTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERV 1833
>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 = 33.7 bits (76), Expect = 0.092
Identities = 25/204 (12%), Positives = 51/204 (25%), Gaps = 86/204 (42%)
Query: 62 HHSVRSLAAVYNKVWCGYKNKIHVVDPKSLKSFDAH---------------------PRR 100
HH + + YK+ + V + + +FD
Sbjct: 1 HHHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDA 60
Query: 101 ESQVRQMTW-------------AGDGV-----WVSIRL-----DSTL----------RMY 127
S ++ W + + ++ + ++ R+Y
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 128 N------------AHTYQHLQD----VDIEPYVS--KMLGMYTFC--SCVTIRTLLAETI 167
N Y L+ + V +LG + V + L+ +
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLG----SGKTWVALDVCLSYKV 176
Query: 168 IS--PFG--W----YANNPADILE 183
F W N+P +LE
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLE 200
Score = 32.1 bits (72), Expect = 0.26
Identities = 36/222 (16%), Positives = 60/222 (27%), Gaps = 68/222 (30%)
Query: 30 CALADGSVAIFRRGPDGQWDLSKYHTVTLGLPHHSVRSLAAVYNKVWCGYKNKIHVVDPK 89
+ +D S I R Q +L + L + L V V + K
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRL----LKSKPY-ENCLL-VLLNVQ----------NAK 257
Query: 90 SLKSFDAHPR-----RESQVRQMTWAGDGVWVSIR-------LDSTLRM---YNAHTYQH 134
+ +F+ + R QV A +S+ D + Y Q
Sbjct: 258 AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD 317
Query: 135 L--QDVDIEPYVSKMLG--------MYTFCSCVTIRTLLAETIISPFGWYAN-NPADILE 183
L + + P ++ + V L TII PA+ +
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL--TTIIESS--LNVLEPAEYRK 373
Query: 184 SFTVCQSHLLCIASVPGTGKLGFSF---VRITALLISSSRLW 222
F L + F I +L+ S +W
Sbjct: 374 MF-----DRLSV------------FPPSAHIPTILL--SLIW 396
>1sg7_A Putative cation transport regulator CHAB; structural genomics,
montreal-kingston bacterial structural genomics
initiative, BSGI; NMR {Escherichia coli} SCOP: a.239.1.1
Length = 96
Score = 28.1 bits (62), Expect = 1.1
Identities = 17/70 (24%), Positives = 22/70 (31%), Gaps = 18/70 (25%)
Query: 56 VTLGLPHHSVRSLAAVYNKVWCGYKNKIHVVDPKSLKSFDAHPRRESQVRQMTWA----- 110
V LP H+ +N W YK+K D S RE ++ WA
Sbjct: 33 VKHVLPSHAQDIYKEAFNSAWDQYKDKEDRRDDAS---------REETAHKVAWAAVKHE 83
Query: 111 ----GDGVWV 116
D W
Sbjct: 84 YAKGDDDKWH 93
>1k32_A Tricorn protease; protein degradation, substrate gating, serine
protease, beta propeller, proteasome, hydrolase; 2.00A
{Thermoplasma acidophilum} SCOP: b.36.1.3 b.68.7.1
b.69.9.1 c.14.1.2 PDB: 1n6e_A 1n6d_A 1n6f_A*
Length = 1045
Score = 30.1 bits (67), Expect = 1.2
Identities = 19/125 (15%), Positives = 42/125 (33%), Gaps = 7/125 (5%)
Query: 24 VQGRVVCALADGSVAIFRRGPDGQW----DLSKYHTVTLGLPHHSVRSLAAVYNKVWCGY 79
++ R V D VA +G + D +V ++ N +
Sbjct: 336 LRIRYVRRGGDTKVAFIHGTREGDFLGIYDYRTGKAEKFEENLGNVFAMGVDRNGKFAVV 395
Query: 80 ---KNKIHVVDPKSLKSFDAHPRRESQVRQMTWAGDGVWVSIRLDSTLRMYNAHTYQHLQ 136
+ +I VD ++ K RE+ + T + + +++ + + Q +
Sbjct: 396 ANDRFEIMTVDLETGKPTVIERSREAMITDFTISDNSRFIAYGFPLKHGETDGYVMQAIH 455
Query: 137 DVDIE 141
D+E
Sbjct: 456 VYDME 460
>2iwa_A Glutamine cyclotransferase; pyroglutamate, acyltransferase,
glutaminyl CYCL N-terminal cyclisation; HET: NAG; 1.6A
{Carica papaya} PDB: 2faw_A*
Length = 266
Score = 29.1 bits (64), Expect = 1.8
Identities = 21/143 (14%), Positives = 41/143 (28%), Gaps = 26/143 (18%)
Query: 2 EYPHPTPYPLNKILDTALPPVHVQGRVVCALADGSVAIFRRGPDGQWDLSKYHTVT---- 57
E+PH P QG V + G G+ + + T
Sbjct: 14 EFPHD-------------PYAFTQGLVYA---ENDTLFESTGLYGRSSVRQVALQTGKVE 57
Query: 58 --LGLPHHSVRSLAAVYNK---VWCGYKNKIHVVDPKSLKSFDAHPRRESQVRQMTWAGD 112
+ + N+ KN + D ++L + + + G
Sbjct: 58 NIHKMDDSYFGEGLTLLNEKLYQVVWLKNIGFIYDRRTLSNIKNFTHQMKDGWGLATDGK 117
Query: 113 GVWVSIRLDSTLRMYNAHTYQHL 135
++ S S L + HT++ +
Sbjct: 118 ILYGSDG-TSILYEIDPHTFKLI 139
>3rob_A Uncharacterized conserved protein; structural genomics,
PSI-biology, protein structure initiati midwest center
for structural genomics; 1.48A {Planctomyces
limnophilus}
Length = 139
Score = 27.8 bits (61), Expect = 2.9
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 26 GRVVCALADGSVAIFRRGPDGQWDLSKYH 54
G V LA +++IFRR G+W L++
Sbjct: 105 GGAVRELAGHAMSIFRRSMFGEWQLARDA 133
>3ott_A Two-component system sensor histidine kinase; beta-propeller,
beta-sandwich, transcription; HET: TBR; 2.30A
{Bacteroides thetaiotaomicron}
Length = 758
Score = 28.8 bits (65), Expect = 3.1
Identities = 11/70 (15%), Positives = 23/70 (32%), Gaps = 2/70 (2%)
Query: 25 QGRVVCALADGSVAIF-RRGPDGQWDLSKYHTVTLGLPHHSVRSLAAVY-NKVWCGYKNK 82
+G A+G + G + T L H+ +R + ++W
Sbjct: 334 KGFYWFGGANGLIRFTDPAGERHDAIWYRMGDKTYPLSHNRIRHIYEDKEQQLWIATDGS 393
Query: 83 IHVVDPKSLK 92
I+ D + +
Sbjct: 394 INRYDYATRQ 403
Score = 28.1 bits (63), Expect = 5.4
Identities = 26/195 (13%), Positives = 55/195 (28%), Gaps = 42/195 (21%)
Query: 50 LSKYHTVT------LGLPHHSVRSLAAVYNKVWCGYKNKIHVVDPKSLK----SFDAHPR 99
+ Y+ VR++A + +W G N ++ +S K +
Sbjct: 84 ILVYNYRADRYEQPETDFPTDVRTMALQGDTLWLGALNGLYTYQLQSRKLTSFDTRRNGL 143
Query: 100 RESQVRQMTWAGDG-VWVSIRLDSTLRMYNAHTYQHLQDVDIEPYVSKMLGMYTFCSCVT 158
+ + + D ++V + L Y + E + + +
Sbjct: 144 PNNTIYSIIRTKDNQIYVGT--YNGLCRYIPSNGK------FEGIPLPVHSSQSNLFVNS 195
Query: 159 IRTLLAETIISPFGWYANNPADILESFTVCQSHLLCIASVPGTGKL----GFSFVRITAL 214
+ + W +L P TG++ F I +L
Sbjct: 196 LLEDTTRQCV----WIGTE------------GYLFQY--FPSTGQIKQTEAFHNNSIKSL 237
Query: 215 LISSS-RLWIGTASG 228
+ + L GT +G
Sbjct: 238 ALDGNGDLLAGTDNG 252
>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 = 27.6 bits (60), Expect = 3.5
Identities = 3/12 (25%), Positives = 10/12 (83%), Gaps = 1/12 (8%)
Query: 117 SIR-LDSTLRMY 127
+++ L ++L++Y
Sbjct: 21 ALKKLQASLKLY 32
>3d9r_A Ketosteroid isomerase-like protein; YP_049581.1, structural joint
center for structural genomics, JCSG, protein structu
initiative; HET: MSE; 2.40A {Pectobacterium
atrosepticum} SCOP: d.17.4.27
Length = 135
Score = 27.4 bits (60), Expect = 3.6
Identities = 8/34 (23%), Positives = 14/34 (41%)
Query: 22 VHVQGRVVCALADGSVAIFRRGPDGQWDLSKYHT 55
+ VV A + + R+ G W ++Y T
Sbjct: 97 TNKATGVVTPAAYQELFLLRKSATGSWQTARYCT 130
>2jo6_A Nitrite reductase [NAD(P)H] small subunit; all beta, ISP domain,
rieske iron-sulfur protein, 3-layer sandwich,
structural genomics, PSI-2; NMR {Escherichia coli}
SCOP: b.33.1.3
Length = 113
Score = 27.0 bits (60), Expect = 4.0
Identities = 11/31 (35%), Positives = 12/31 (38%), Gaps = 5/31 (16%)
Query: 19 LPPVHVQGRVVCALADG-SVAIFRRGPDGQW 48
+ P VCAL VAIFR Q
Sbjct: 16 ILP----ETGVCALLGDEQVAIFRPYHSDQV 42
>2jza_A Nitrite reductase [NAD(P)H] small subunit; ISP domain, rieske
iron-sulfur protein, 3-layer beta- sandwich; NMR
{Pectobacterium atrosepticum SCRI1043} SCOP: b.33.1.3
Length = 130
Score = 26.7 bits (59), Expect = 5.6
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 5/31 (16%)
Query: 19 LPPVHVQGRVVCALADG-SVAIFRRGPDGQW 48
+ P G VCAL + +A+FR D Q
Sbjct: 13 ILP----GTGVCALVEQQQIAVFRPRNDEQV 39
>1vbk_A Hypothetical protein PH1313; structural genomics, riken structural
genomics/proteomics initiative, RSGI, NPPSFA; 1.90A
{Pyrococcus horikoshii} SCOP: c.26.2.6 d.308.1.1
Length = 307
Score = 27.5 bits (61), Expect = 5.7
Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 15/76 (19%)
Query: 21 PVHVQGRVVCALADG--SVAIF---RRGPDGQWDLSKYHTVTLGLPHHS---VRSLAAVY 72
P+ +GR++ L D ++AIF +RG + V +G + VRSL +
Sbjct: 175 PIGTEGRMIGILHDELSALAIFLMMKRG-------VEVIPVYIGKDDKNLEKVRSLWNLL 227
Query: 73 NKVWCGYKNKIHVVDP 88
+ G K + V +
Sbjct: 228 KRYSYGSKGFLVVAES 243
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 27.9 bits (62), Expect = 6.2
Identities = 6/26 (23%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 66 RSLAAVYNKVWCGYKNKIHVVDPKSL 91
+++ G+ N ++V+D K L
Sbjct: 941 KTVIDAMAIF-DGHANVVYVIDTKVL 965
>2gxf_A Hypothetical protein YYBH; alpha-beta protein., structural
genomics, PSI, protein structure initiative; HET: MES;
3.10A {Bacillus subtilis} SCOP: d.17.4.22
Length = 142
Score = 26.6 bits (58), Expect = 8.4
Identities = 4/28 (14%), Positives = 11/28 (39%), Gaps = 8/28 (28%)
Query: 21 PVHVQGRVVCALADGSVAIFRRGPDGQW 48
++ R + +F++ G+W
Sbjct: 95 EYAMERR--------ATYVFKKNAQGEW 114
>3lrv_A PRE-mRNA-splicing factor 19; PRP19, WD40, E3 ubiquitin ligase,
spliceosome, DNA damage, D repair, mRNA processing,
nucleus; 2.60A {Saccharomyces cerevisiae}
Length = 343
Score = 27.0 bits (59), Expect = 9.1
Identities = 13/124 (10%), Positives = 37/124 (29%), Gaps = 15/124 (12%)
Query: 12 NKILDTALPPVHVQGRVVCALADGSVAIFRRGPDGQWDLSKYHTVTLGLPHH--SVRSLA 69
N+I+ + A G++ + S
Sbjct: 126 NEIIYMYGHNEVNTEYFIWADNRGTIGF--------QSYEDDSQYIVHSAKSDVEYSSGV 177
Query: 70 AVYNKVWC---GYKNKIHVVDPKSLKSFDAHPRR--ESQVRQMTWAGDGVWVSIRLDSTL 124
+ + + V + S + E++++++ +A +G W+ + D T+
Sbjct: 178 LHKDSLLLALYSPDGILDVYNLSSPDQASSRFPVDEEAKIKEVKFADNGYWMVVECDQTV 237
Query: 125 RMYN 128
++
Sbjct: 238 VCFD 241
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
0.322 0.136 0.430
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,201,591
Number of extensions: 308991
Number of successful extensions: 717
Number of sequences better than 10.0: 1
Number of HSP's gapped: 715
Number of HSP's successfully gapped: 29
Length of query: 325
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 231
Effective length of database: 4,077,219
Effective search space: 941837589
Effective search space used: 941837589
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: 57 (26.0 bits)