RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8734
(264 letters)
>3nqw_A CG11900; stringent response, pyrophosphohydrolase, HD (histidine
and acid) family ,PPGPP hydrolase, hydrolase; 2.90A
{Drosophila melanogaster}
Length = 179
Score = 226 bits (579), Expect = 1e-75
Identities = 83/175 (47%), Positives = 120/175 (68%)
Query: 80 SPDAIMNIVKATDFASHKHHFQRRKDPEGTPYIEHPVAVAHILTHLGKVSNPVVIISALL 139
+ ++ +A+ KH QRRKDP+ TPY+ H + V+ IL+ +++ V+++ALL
Sbjct: 2 ATYPSAKFMECLQYAAFKHRQQRRKDPQETPYVNHVINVSTILSVEACITDEGVLMAALL 61
Query: 140 HDTVEDTDTTFEEIEREFGPRVRSVVEELTDNKHMTRDERKRCQILHAPHSSHEAKLVKL 199
HD VEDTD +FE++E+ FGP V +V E+TD+K + + ERKR QI +A SS AKL+KL
Sbjct: 62 HDVVEDTDASFEDVEKLFGPDVCGLVREVTDDKSLEKQERKRLQIENAAKSSCRAKLIKL 121
Query: 200 ADKLHNLRDIERSLPVNWTEERKTQYFNWARDVVQGLRGTNAPIEAELDALFAKY 254
ADKL NLRD++ + P WT+ER+ QYF WA+ VV LRGTNA +E +LD +F +
Sbjct: 122 ADKLDNLRDLQVNTPTGWTQERRDQYFVWAKKVVDNLRGTNANLELKLDEIFRQR 176
>3nr1_A HD domain-containing protein 3; stringent response,
pyrophosphohydrolase, HD (histidine and acid) family,
PPGPP hydrolase, hydrolase; 1.90A {Homo sapiens}
Length = 178
Score = 206 bits (526), Expect = 1e-67
Identities = 97/167 (58%), Positives = 124/167 (74%)
Query: 87 IVKATDFASHKHHFQRRKDPEGTPYIEHPVAVAHILTHLGKVSNPVVIISALLHDTVEDT 146
+++A DFA+ KH QRRKDPEGTPYI HP+ VA ILTH +++ VV+ +ALLHDTVEDT
Sbjct: 7 LLEAADFAARKHRQQRRKDPEGTPYINHPIGVARILTHEAGITDIVVLQAALLHDTVEDT 66
Query: 147 DTTFEEIEREFGPRVRSVVEELTDNKHMTRDERKRCQILHAPHSSHEAKLVKLADKLHNL 206
DTT +E+E FG +VR +VEE+TD+K + + ERKR Q+ APHSS AKLVKLADKL+NL
Sbjct: 67 DTTLDEVELHFGAQVRRLVEEVTDDKTLPKLERKRLQVEQAPHSSPGAKLVKLADKLYNL 126
Query: 207 RDIERSLPVNWTEERKTQYFNWARDVVQGLRGTNAPIEAELDALFAK 253
RD+ R P W+E R +YF WA VV+GL+GTN +E L LF +
Sbjct: 127 RDLNRCTPEGWSEHRVQEYFEWAAQVVKGLQGTNRQLEEALKHLFKQ 173
>1vj7_A Bifunctional RELA/SPOT; HD domain, alpha beta 2-layer sandwich,
helix bundle, mangan PPG2':3'P, (P)PPGPP, PPGPP; HET:
GDP GPX; 2.10A {Streptococcus dysgalactiae subsp} SCOP:
a.211.1.1 d.218.1.8
Length = 393
Score = 111 bits (280), Expect = 9e-29
Identities = 50/149 (33%), Positives = 68/149 (45%), Gaps = 38/149 (25%)
Query: 79 HSPDAIMNIVKATDFASHKHHFQRRKDPEGTPYIEHPVAVAHILTHLGKVSNPVVIISAL 138
+ + KA D+A+ H +Q RK G PYI HP+ VA IL L + V +
Sbjct: 20 MNETDAAFVKKALDYATAAHFYQVRKS--GEPYIVHPIQVAGILADLH--LDAVTVACGF 75
Query: 139 LHDTVEDTDTTFEEIEREFGPRVRSVVEELT-------DNKH-------------MTRDE 178
LHD VEDTD T + IE +FG VR +V+ +T + M++D
Sbjct: 76 LHDVVEDTDITLDNIEFDFGKDVRDIVDGVTKLGKVEYKSHEEQLAENHRKMLMAMSKDI 135
Query: 179 RKRCQILHAPHSSHEAKLVKLADKLHNLR 207
R LVKLAD+LHN+R
Sbjct: 136 R--------------VILVKLADRLHNMR 150
>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 = 43.9 bits (103), Expect = 4e-05
Identities = 41/235 (17%), Positives = 69/235 (29%), Gaps = 92/235 (39%)
Query: 22 AAPYKALP------KLESGPKGLPLMYVPM--VRKGKPEAPAVEVHVHE--ARLGE---- 67
A P +LP LE+ +G+P PM + + V+ +V++ + L
Sbjct: 313 AYPNTSLPPSILEDSLENN-EGVP---SPMLSIS-NLTQE-QVQDYVNKTNSHLPAGKQV 366
Query: 68 ------APD----TGDSDSGMHSPDAIMNIVKATD--------FASHKHHFQRRKDPEGT 109
+G S ++ + + KA F+ K F R P +
Sbjct: 367 EISLVNGAKNLVVSGPPQS-LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS 425
Query: 110 PYIEH-----PVAVAHILTHLGKVSNPVVIISALLHDTVEDTDTTFEEIEREFGPRVRSV 164
P+ H P A I L K N V + + V DT G +R +
Sbjct: 426 PF--HSHLLVP-ASDLINKDLVK--NNVSFNAKDIQIPVYDTFD---------GSDLRVL 471
Query: 165 VEELTDNKHMTRDERKRCQILHAPHSSHEAKLVKLADKLHNLRDIERSLPVNWTE 219
+++ + D + LPV W
Sbjct: 472 SGSISER---------------------------IVDCI-------IRLPVKWET 492
>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 = 0.002
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 10/34 (29%)
Query: 26 KALPKLESGPKGLPLMYVPMVRKGKPEAPAVEVH 59
+AL KL++ K +Y APA+ +
Sbjct: 20 QALKKLQASLK----LYAD------DSAPALAIK 43
>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 = 36.8 bits (84), Expect = 0.006
Identities = 28/219 (12%), Positives = 61/219 (27%), Gaps = 81/219 (36%)
Query: 97 KHHFQRRKDPEGTPYIEHPVAVAHILTHLGKV-SNPVVII--------SALLHDTVEDTD 147
K++ R + PY++ + L ++ V+I + + D
Sbjct: 128 KYNVSRLQ-----PYLK-------LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS-- 173
Query: 148 TTFEEIEREFGPRV-----------RSVVEELTD-NKHMTRDERKRC-QILHAPHSSHEA 194
+++ + ++ +V+E L + + R + H
Sbjct: 174 ---YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230
Query: 195 KLVK---LADKLHN-----LRDIERSLPVNWTEERKTQYFNWA-------R-----DVVQ 234
+ L K + L ++ + FN + R D +
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNV-------QNAK-AWNAFNLSCKILLTTRFKQVTDFLS 282
Query: 235 GLRGTNAPI--------EAELDALFAKY------CTPRE 259
T+ + E+ +L KY PRE
Sbjct: 283 AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
>3kh1_A Predicted metal-dependent phosphohydrolase; structural genomics,
joint center for structural genomics, JCSG; HET: MSE;
1.37A {Magnetospirillum magnetotacticum ms-1}
Length = 200
Score = 32.6 bits (74), Expect = 0.079
Identities = 20/95 (21%), Positives = 31/95 (32%), Gaps = 11/95 (11%)
Query: 118 VAHILTHL--GKVSNPVVIISALLHDTVE----DTDTTFEEIEREFGPRVRSVVEELTDN 171
+A +L V V L+HD VE DT E + R R L
Sbjct: 51 MAFLLAEYADEAVQIGRVARMLLIHDIVEIDAGDTFIHDEAGNEDKEERERKAAARLFG- 109
Query: 172 KHMTRDERKRCQILHAPH---SSHEAKLVKLADKL 203
+ D+ L + + +A+ D+L
Sbjct: 110 -LLPPDQAAEYSALWQEYEARETADARFADALDRL 143
>2paq_A 5'-deoxynucleotidase YFBR; HD domain phosphoh structural genomics,
PSI, protein structure initiative, MID center for
structural genomics, MCSG; 2.10A {Escherichia coli}
SCOP: a.211.1.1 PDB: 2par_A* 2pau_A*
Length = 201
Score = 32.3 bits (73), Expect = 0.089
Identities = 21/102 (20%), Positives = 33/102 (32%), Gaps = 8/102 (7%)
Query: 133 VIISALLHDTVE----DTDTTF----EEIEREFGPRVRSVVEELTDNKHMTRDERKRCQI 184
+ + A+ HD E D T +I +E+ + ++L D + I
Sbjct: 63 IALLAMYHDASEVLTGDLPTPVKYFNSQIAQEYKAIEKIAQQKLVDMVPEELRDIFAPLI 122
Query: 185 LHAPHSSHEAKLVKLADKLHNLRDIERSLPVNWTEERKTQYF 226
+S E LVK AD L L E +
Sbjct: 123 DEHAYSDEEKSLVKQADALCAYLKCLEELAAGNNEFLLAKTR 164
>1ynb_A Hypothetical protein AF1432; structural genomics, PSI, protein
structure initiative, MIDW center for structural
genomics, MCSG; 1.76A {Archaeoglobus fulgidus} SCOP:
a.211.1.1 PDB: 1yoy_A
Length = 173
Score = 30.9 bits (69), Expect = 0.23
Identities = 15/104 (14%), Positives = 23/104 (22%), Gaps = 11/104 (10%)
Query: 133 VIISALLHDTVEDTDTTFEEIEREFGPRVRSVVEELTDNKHMTRDERKRCQILHAPHSSH 192
+AL HD E + + E + + P S
Sbjct: 67 AATAALFHDLHEA-----------RTMDLHKIARRYVSCDEEGAREEQLSWMESKPDFSD 115
Query: 193 EAKLVKLADKLHNLRDIERSLPVNWTEERKTQYFNWARDVVQGL 236
V ADKL R + D + +
Sbjct: 116 VEVYVSDADKLELAFQGVEYSQQVSYAIRFAENVELKTDAAKEI 159
>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 = 1.5
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 11/50 (22%)
Query: 176 RDER-KRCQILHAPHSSHEAKLVKLADKLHNLRDIERSLPVNWTEERKTQ 224
R+E+ KR Q L A E + + A K D+E W + + Q
Sbjct: 91 REEQRKRLQELDAASKVMEQEWREKAKK-----DLE-----EWNQRQSEQ 130
>2cqz_A 177AA long hypothetical protein; hypothetical proteins, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii}
Length = 177
Score = 28.5 bits (63), Expect = 1.6
Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 10/74 (13%)
Query: 133 VIISALLHDTVE--DTDTTFEEIER-EFGPRVRSVVEELTDNKHMTRDERKRCQILHAPH 189
+ A++HD E TD E + V +++ + E +
Sbjct: 63 ALKMAIVHDLAEAIITDIPLSAQEFVDKDKAEALVFKKVFPEFYELYRE-------YQEC 115
Query: 190 SSHEAKLVKLADKL 203
SS EA+LV++ADKL
Sbjct: 116 SSPEAQLVRIADKL 129
>4dmb_A HD domain-containing protein 2; structural genomics, PSI-biology,
protein structure initiati northeast structural genomics
consortium (NESG); HET: MSE GOL; 1.90A {Homo sapiens}
Length = 204
Score = 28.6 bits (63), Expect = 1.8
Identities = 22/105 (20%), Positives = 36/105 (34%), Gaps = 9/105 (8%)
Query: 137 ALLHDTVE----DTDTTFEEIEREFGPRVRSVVEELTDNKHMTRDERKRCQIL---HAPH 189
AL+HD E D + E R ++++T + D RK L +
Sbjct: 74 ALVHDMAECIVGDIAPADNIPKEEKHRREEEAMKQITQ--LLPEDLRKELYELWEEYETQ 131
Query: 190 SSHEAKLVKLADKLHNLRDIERSLPVNWTEERKTQYFNWARDVVQ 234
SS EAK VK D+ + + R +++
Sbjct: 132 SSAEAKFVKQLDQCEMILQASEYEDLEHKPGRLQDFYDSTAGKFN 176
>1y88_A Hypothetical protein AF1548; APC5567, structural genomics, protein
structure INIT PSI, midwest center for structural
genomics center, MCSG; 1.85A {Archaeoglobus fulgidus}
SCOP: a.60.4.3 c.52.1.30
Length = 199
Score = 28.1 bits (62), Expect = 2.3
Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 3/44 (6%)
Query: 95 SHKHHFQRRKDPEGTPYIEHPVAVAHILTHLG-KVSNPVVIISA 137
S HH E + H VA +L G + V++
Sbjct: 3 SSHHHHHHSSGRENLYFQGH--MVARLLEEHGFETKTNVIVQGN 44
>3mzo_A LIN2634 protein; HD-domain phosphohydrolase, structural genomics,
joint cente structural genomics, JCSG, protein structure
initiative; HET: MSE; 1.98A {Listeria innocua}
Length = 216
Score = 28.2 bits (62), Expect = 2.6
Identities = 24/109 (22%), Positives = 37/109 (33%), Gaps = 19/109 (17%)
Query: 113 EHPVAVAHILTHLGKVSNPV--------VIISALLHDTVE----DTDTTFEEIEREFGPR 160
EH V I G V + AL HD E D T + E
Sbjct: 33 EHSYKVTSIAQFFGAVEEDAGNEVNWRALYEKALNHDYSELFIGDIKTPVKYATTELREM 92
Query: 161 VRSVVEELTDNKHMTRD------ERKRCQILHAPHSSHEAKLVKLADKL 203
+ V EE ++R+ R + S+ E K++ ++DK+
Sbjct: 93 LSEV-EESMTKNFISREIPATFQPIYRHLLKEGKDSTLEGKILAISDKV 140
>3sz3_A Tryptophanyl-tRNA synthetase; structural genomics, center for
structural genomics of infec diseases, csgid, rossmann
fold; HET: TRP; 1.50A {Vibrio cholerae o1 biovar el tor}
Length = 341
Score = 27.1 bits (61), Expect = 5.7
Identities = 18/81 (22%), Positives = 28/81 (34%), Gaps = 28/81 (34%)
Query: 80 SPDAIMN-IVKA-TDFASHKHHFQRRKDPEGTPYIEHPVAVAHILTHLGKVSNPVVIISA 137
P +I+ I KA TD + + D E ++N + + SA
Sbjct: 218 DPKSIIKKINKAQTDAETPP---RIAYDVENKA----------------GIANLMGLYSA 258
Query: 138 LLHDTVEDTDTTFEEIEREFG 158
T TF EIE ++
Sbjct: 259 A-------TGKTFAEIEAQYA 272
>2xub_A DNA-directed RNA polymerase III subunit RPC3; transcription, winged
helix; 2.80A {Homo sapiens} PDB: 2xv4_S
Length = 534
Score = 26.8 bits (58), Expect = 8.3
Identities = 16/109 (14%), Positives = 33/109 (30%), Gaps = 6/109 (5%)
Query: 151 EEIEREFGPRVRSVVEELTDNKHMTRDERKRCQILHAPHSSHEAKLVKLAD------KLH 204
+ + +VEEL N +T + + + K + A+ +L
Sbjct: 93 YTTKTLYSDTGELIVEELLLNGKLTMSAVVKKVADRLTETMEDGKTMDYAEVSNTFVRLA 152
Query: 205 NLRDIERSLPVNWTEERKTQYFNWARDVVQGLRGTNAPIEAELDALFAK 253
+ ++R V TE A +V + + L +
Sbjct: 153 DTHFVQRCPSVPTTENSDPGPPPPAPTLVINEKDMYLVPKLSLIGKGKR 201
>1ute_A Protein (II purple acid phosphatase); tartrate resistant acid
phosphatase metalloenzyme, uteroferrin, hydrolase; HET:
NAG; 1.55A {Sus scrofa} SCOP: d.159.1.1 PDB: 1war_A*
2bq8_X 1qfc_A* 1qhw_A*
Length = 313
Score = 26.6 bits (58), Expect = 8.9
Identities = 5/20 (25%), Positives = 9/20 (45%)
Query: 93 FASHKHHFQRRKDPEGTPYI 112
H H+ Q +D G ++
Sbjct: 218 LCGHDHNLQYLQDENGLGFV 237
>2ogi_A Hypothetical protein SAG1661; structural genomics, joint center for
structural genomics, J protein structure initiative;
HET: GDP MES; 1.85A {Streptococcus agalactiae serogroup
V}
Length = 196
Score = 26.4 bits (58), Expect = 9.3
Identities = 21/115 (18%), Positives = 36/115 (31%), Gaps = 19/115 (16%)
Query: 113 EHPVAVAHILTHLGK---VSNPVVIISALLHDTV-EDTDTTFEEIEREFGPRVRSVVE-- 166
H + V L + ++ALLHD E +D F + ++ P
Sbjct: 29 NHVLGVERAAIELAERYGYDKEKAGLAALLHDYAKELSDDEFLRLIDKYQPDPDLKKWGN 88
Query: 167 ---------ELTDNKHMTRDERKRCQILH----APHSSHEAKLVKLADKLHNLRD 208
+D+ I + S K+V +AD + + RD
Sbjct: 89 NIWHGLVGIYKIQEDLAIKDQDILAAIAKHTVGSAQMSTLDKIVYVADYIEHNRD 143
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
0.318 0.134 0.396
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,151,398
Number of extensions: 256131
Number of successful extensions: 585
Number of sequences better than 10.0: 1
Number of HSP's gapped: 578
Number of HSP's successfully gapped: 41
Length of query: 264
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 172
Effective length of database: 4,133,061
Effective search space: 710886492
Effective search space used: 710886492
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 (25.2 bits)