RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy333
(70 letters)
>3e2q_A Proline oxidase, proline dehydrogenase; proline utilization A,
PUTA, flavoenzyme, DNA-binding, FAD, flavoprotein,
multifunctional enzyme, NAD; HET: FAD 1PE; 1.75A
{Escherichia coli} PDB: 3e2r_A* 3e2s_A* 1tj2_A* 1tiw_A*
1tj0_A* 1tj1_A* 2fzm_A* 2fzn_A* 3itg_A*
Length = 551
Score = 31.5 bits (71), Expect = 0.011
Identities = 9/21 (42%), Positives = 10/21 (47%)
Query: 12 YIPYGPVNEVLPYLSRRATEN 32
P G +L YL RR EN
Sbjct: 455 SAPVGTHETLLAYLVRRLLEN 475
>1k87_A PUTA, proline dehydrogenase, proline dehydroge; multi-functional
protein, transcripti repressor, shuttling, dimer,
oxidoreductase; HET: FAD 1PE; 2.00A {Escherichia coli}
SCOP: a.176.1.1 c.1.23.2
Length = 669
Score = 30.8 bits (69), Expect = 0.020
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 12 YIPYGPVNEVLPYLSRRATEN 32
Y P G +L YL RR EN
Sbjct: 540 YAPVGTHETLLAYLVRRLLEN 560
>2ekg_A Proline dehydrogenase/delta-1-pyrroline-5-carboxy dehydrogenase;
flavoenzyme, prodh, beta-alpha-barrel inhibitor,
inactivation, flavocyanine; HET: LYX FAD; 1.90A {Thermus
thermophilus} PDB: 2g37_A*
Length = 327
Score = 29.2 bits (66), Expect = 0.065
Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 12 YIPYGPVNEVLPYLSRRATEN 32
Y+PYG + PYL+RR E
Sbjct: 295 YVPYGR--DWYPYLTRRIAER 313
>4f9i_A Proline dehydrogenase/delta-1-pyrroline-5-carboxy dehydrogenase;
proline utilization A, PUTA, flavoenzyme, structural
genomic biology; HET: FAD MES; 2.20A {Geobacter
sulfurreducens}
Length = 1026
Score = 28.5 bits (64), Expect = 0.14
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 12 YIPYGPVNEVLPYLSRRATEN 32
Y PYG + + YL RR EN
Sbjct: 428 YAPYGNMVPGMGYLVRRLLEN 448
>3ei3_B DNA damage-binding protein 2; UV-damage, DDB, nucleotide excision
repair, xeroderma pigmentosum, cytoplasm, DNA repair;
HET: DNA PG4; 2.30A {Danio rerio} PDB: 3ei1_B* 3ei2_B*
4a08_B* 4a09_B* 4a0a_B* 4a0b_B* 4a0k_D* 4a0l_B*
Length = 383
Score = 26.9 bits (60), Expect = 0.43
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 39 ISKEKKLLRQEILRRIKSGKLFYTPKGH 66
++ ++ L++ +R +KS KL T
Sbjct: 45 HAQLRQCLQEPFIRSLKSYKLHRTASPF 72
>3haz_A Proline dehydrogenase; proline utilization A, PUTA, flavoenzyme,
1-pyrroline-5-carboxylate dehydrogenase, oxidoreductase;
HET: FAD NAD; 2.10A {Bradyrhizobium japonicum usda 110}
Length = 1001
Score = 26.3 bits (58), Expect = 0.94
Identities = 11/32 (34%), Positives = 14/32 (43%)
Query: 1 MAGQAGYSAYKYIPYGPVNEVLPYLSRRATEN 32
A + Y P G ++L YL RR EN
Sbjct: 432 AKDHADIAYRTYAPVGSHRDLLAYLVRRLLEN 463
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 26.0 bits (57), Expect = 1.0
Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 6/52 (11%)
Query: 11 KYIPYGPVNEVLPYLSRRATENKGVLEKISKEKKLLRQEILRRIKSGKLFYT 62
+Y+ Y P L+ A +++ + R+E+ R+ G
Sbjct: 401 RYLLYAIREHPAPELTEEAR------KRLEHWYETRREEVEERLGMGLPTLP 446
>3f81_A Dual specificity protein phosphatase 3; hydrolase, protein
dual-specificity phosphatase, inhibitor; HET: STT;
1.90A {Homo sapiens} PDB: 1vhr_A* 1j4x_A*
Length = 183
Score = 25.0 bits (55), Expect = 2.1
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 3/29 (10%)
Query: 13 IPYGPVNEVLPYL---SRRATENKGVLEK 38
+P P NEV P + + ++ L+K
Sbjct: 23 LPSQPCNEVTPRIYVGNASVAQDIPKLQK 51
>2jcb_A 5-formyltetrahydrofolate cyclo-ligase family PROT; folate
metabolism; HET: ADP; 1.6A {Bacillus anthracis}
Length = 200
Score = 24.9 bits (55), Expect = 2.2
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 37 EKISKEKKLLRQEILRRIKS 56
+ +EK LR++I+ + S
Sbjct: 7 HHVREEKLRLRKQIIEHMNS 26
>2esb_A Dual specificity protein phosphatase 18; alpha/beta structure,
hydrolase; HET: EPE; 2.00A {Homo sapiens}
Length = 188
Score = 24.6 bits (54), Expect = 2.7
Identities = 5/32 (15%), Positives = 13/32 (40%), Gaps = 3/32 (9%)
Query: 10 YKYIPYGPVNEVLPYL---SRRATENKGVLEK 38
++ ++++ L + A NK +L
Sbjct: 12 FRQPSVSGLSQITKSLYISNGVAANNKLMLSS 43
>3kr9_A SAM-dependent methyltransferase; class I rossmann-like
methyltransferase fold; 2.00A {Streptococcus pneumoniae}
PDB: 3ku1_A*
Length = 225
Score = 24.4 bits (53), Expect = 3.3
Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 7/59 (11%)
Query: 3 GQAGYSAYKYIPYGPV-----NEVLP-YLSRRATENKGVLEKISKEKKLLRQEILRRIK 55
GQ SA +GP + V + A + + L +I ++ RQ ++ +I+
Sbjct: 158 GQMKLSASDVR-FGPFLSKEVSPVFVQKWQKEAEKLEFALGQIPEKNLEERQVLVDKIQ 215
>2oud_A Dual specificity protein phosphatase 10; A central five-stranded
B-sheet, hydrolase; 2.80A {Homo sapiens}
Length = 177
Score = 24.2 bits (53), Expect = 3.4
Identities = 4/30 (13%), Positives = 14/30 (46%), Gaps = 3/30 (10%)
Query: 12 YIPYGPVNEVLPYL---SRRATENKGVLEK 38
I + +LP+L + + ++ +++
Sbjct: 2 DIENAELTPILPFLFLGNEQDAQDLDTMQR 31
>3lec_A NADB-rossmann superfamily protein; PSI, MCSG, structural genomics,
midwest CENT structural genomics, protein structure
initiative; 1.80A {Streptococcus agalactiae}
Length = 230
Score = 24.1 bits (52), Expect = 5.1
Identities = 11/59 (18%), Positives = 18/59 (30%), Gaps = 7/59 (11%)
Query: 3 GQAGYSAYKYIPYGPV-----NEVLP-YLSRRATENKGVLEKISKEKKLLRQEILRRIK 55
G +A K + +GP V + L I K R + +I+
Sbjct: 164 GHMNLTA-KELRFGPFLLSNNTTVFKEKWQNELNKLTFALNSIPNSKMEERAILEDKIQ 221
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 24.0 bits (52), Expect = 5.2
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 36 LEKISKEKKLLRQEILRRIKS 56
E I + ++ ILRR+K
Sbjct: 441 EEYIHDLHRRIQPFILRRLKK 461
>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 = 23.8 bits (50), Expect = 5.2
Identities = 5/28 (17%), Positives = 11/28 (39%), Gaps = 7/28 (25%)
Query: 42 EKKLLRQEILRRIKSGKLFYTPKGHYTP 69
EK Q + +++++ Y P
Sbjct: 18 EK----QAL-KKLQASLKLYADDS--AP 38
>4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit,
transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B
2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B
Length = 1131
Score = 24.0 bits (52), Expect = 5.6
Identities = 7/49 (14%), Positives = 21/49 (42%)
Query: 19 NEVLPYLSRRATENKGVLEKISKEKKLLRQEILRRIKSGKLFYTPKGHY 67
++ L ++ R + +I K ++++ + L + + K +Y
Sbjct: 269 DDALDFIGSRVAIGQKRENRIEKAQQIIDKYFLPHLGTSADDRRKKAYY 317
>3hy3_A 5-formyltetrahydrofolate cyclo-ligase; antifolate, cancer,
ATP-binding, binding, magnesium, nucleotide-binding;
HET: 10F; 1.80A {Homo sapiens} PDB: 3hxt_A* 3hy4_A*
3hy6_A
Length = 203
Score = 23.8 bits (52), Expect = 5.6
Identities = 6/18 (33%), Positives = 13/18 (72%)
Query: 39 ISKEKKLLRQEILRRIKS 56
+S K+ LR E+ +R+++
Sbjct: 6 VSSAKRSLRGELKQRLRA 23
>2dyj_A Ribosome-binding factor A; 16S rRNA processing, 17S RNA, KH
domain; 1.84A {Thermus thermophilus} SCOP: d.52.7.1
PDB: 2r1c_A
Length = 95
Score = 23.3 bits (51), Expect = 5.7
Identities = 8/34 (23%), Positives = 18/34 (52%), Gaps = 3/34 (8%)
Query: 31 ENKGVLEKISKEKKLLRQEILRRIKSGKLFYTPK 64
E +G L +S+ ++ L + RR+ ++ P+
Sbjct: 54 EEEGALRALSRAERRLVAALARRV---RMRRLPR 84
>2y96_A Dual specificity phosphatase DUPD1; hydrolase; 2.38A {Homo
sapiens}
Length = 219
Score = 23.5 bits (51), Expect = 6.6
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 3/28 (10%)
Query: 14 PYGPVNEVLPYL---SRRATENKGVLEK 38
Y VNEV P L ++ L+K
Sbjct: 50 QYTHVNEVWPKLYIGDEATALDRYRLQK 77
>2wgp_A Dual specificity protein phosphatase 14; MKP6, DUSP14, hydrolase,
dual specifici phosphatase; 1.88A {Homo sapiens}
Length = 190
Score = 23.5 bits (51), Expect = 7.1
Identities = 4/28 (14%), Positives = 10/28 (35%), Gaps = 3/28 (10%)
Query: 14 PYGPVNEVLPYL---SRRATENKGVLEK 38
G + ++ L N+ +L+
Sbjct: 22 DIGGIAQITSSLFLGRGSVASNRHLLQA 49
>1twf_B DNA-directed RNA polymerase II 140 kDa polypeptid; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.1 PDB: 1i3q_B
1i6h_B 1k83_B* 1nik_B 1nt9_B 1pqv_B 1r5u_B 1r9s_B*
1r9t_B* 1sfo_B* 1twa_B* 1twc_B* 1i50_B* 1twg_B* 1twh_B*
1wcm_B 1y1v_B 1y1w_B 1y1y_B 1y77_B* ...
Length = 1224
Score = 23.7 bits (51), Expect = 7.8
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 24 YLSRRATENKGVLEKISKE-KKLLRQEILRRIKSGKLFYTPKGHY 67
++ RR T EK + K +L++E L I + F + K +
Sbjct: 333 FIGRRGTALGIKKEKRIQYAKDILQKEFLPHITQLEGFESRKAFF 377
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination-DNA binding COM; 3.00A {Danio rerio} SCOP:
c.37.1.19 c.37.1.19
Length = 644
Score = 23.4 bits (51), Expect = 8.5
Identities = 4/21 (19%), Positives = 11/21 (52%), Gaps = 1/21 (4%)
Query: 37 EKISKE-KKLLRQEILRRIKS 56
E+ +E ++ + ++RR
Sbjct: 281 EQKLQELISIVNRCLIRRTSD 301
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
0.316 0.137 0.394
Gapped
Lambda K H
0.267 0.0717 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,075,319
Number of extensions: 49561
Number of successful extensions: 228
Number of sequences better than 10.0: 1
Number of HSP's gapped: 228
Number of HSP's successfully gapped: 24
Length of query: 70
Length of database: 6,701,793
Length adjustment: 40
Effective length of query: 30
Effective length of database: 5,584,953
Effective search space: 167548590
Effective search space used: 167548590
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 (21.6 bits)
S2: 51 (23.4 bits)