RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12162
(242 letters)
>3peg_A Neurofibromin; SEC14 domain, pleckstrin homology domain, PH domain,
phosphatidylethanolamin binding, lipid binding, lipid
bindi protein; HET: PEV; 2.52A {Homo sapiens}
Length = 290
Score = 117 bits (294), Expect = 6e-32
Identities = 17/119 (14%), Positives = 47/119 (39%), Gaps = 1/119 (0%)
Query: 105 ELKDEEDFADVASYGIVDVVGDDMFGRKLIVLSACKLPSNKELDHGRLLGYLTYVLDKFV 164
++ ++E+F + + I G G + A + + +++ L+ ++ L +
Sbjct: 16 QVHEKEEFKALKTLSIFYQAGTSKAGNPIFYYVARRFKT-GQINGDLLIYHVLLTLKPYY 74
Query: 165 EQDYSLVYFHYGLTSKNKPSLSWLWSAYRAFDRKYKKNLKALYLVHPTGFIRVVLQIFK 223
+ Y +V N+ +L + F N+ A+Y+ + ++R + +
Sbjct: 75 AKPYEIVVDLTHTGPSNRFKTDFLSKWFVVFPGFAYDNVSAVYIYNCNSWVREYTKYHE 133
>3pg7_A Neurofibromin; SEC lipid binding domain, PH domain, lipid binding
protein; HET: PTY; 2.19A {Homo sapiens} PDB: 2e2x_A*
3p7z_A* 2d4q_A*
Length = 256
Score = 112 bits (281), Expect = 3e-30
Identities = 17/115 (14%), Positives = 44/115 (38%), Gaps = 1/115 (0%)
Query: 109 EEDFADVASYGIVDVVGDDMFGRKLIVLSACKLPSNKELDHGRLLGYLTYVLDKFVEQDY 168
+E+F + + I G G + A + + +++ L+ ++ L + + Y
Sbjct: 1 KEEFKALKTLSIFYQAGTSKAGNPIFYYVARRFKTG-QINGDLLIYHVLLTLKPYYAKPY 59
Query: 169 SLVYFHYGLTSKNKPSLSWLWSAYRAFDRKYKKNLKALYLVHPTGFIRVVLQIFK 223
+V N+ +L + F N+ A+Y+ + ++R + +
Sbjct: 60 EIVVDLTHTGPSNRFKTDFLSKWFVVFPGFAYDNVSAVYIYNCNSWVREYTKYHE 114
>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 = 38.1 bits (88), Expect = 0.002
Identities = 40/235 (17%), Positives = 68/235 (28%), Gaps = 100/235 (42%)
Query: 73 VSDGTIEENFEEELINAPMGQLDSLAATCTDDELKDEEDFADVASYGIVDVVGDDMFGRK 132
+S G++E L+ P A+ +L+++ F + DD
Sbjct: 11 LSHGSLEHVL---LV--PTASF--FIAS----QLQEQ--FNKILPEPTEGFAADD----- 52
Query: 133 LIVLSACKLPSNKELDHGRLLGYLTY----------------VLDKFVEQDY-------S 169
+ + EL G+ LGY++ L +F E Y +
Sbjct: 53 -------EPTTPAEL-VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF-ENCYLEGNDIHA 103
Query: 170 LV--------------------YFHYGLTSK---NKPSLSWLWSA--------YRAF--- 195
L Y + +K +K S S L+ A F
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ 163
Query: 196 --DRKYKKNLKALY-----LVHPTGFIRV---VLQIFKAVPVD----FRTTLDLV 236
Y + L+ LY LV I+ L +D F L+++
Sbjct: 164 GNTDDYFEELRDLYQTYHVLVGD--LIKFSAETLSELIRTTLDAEKVFTQGLNIL 216
Score = 35.4 bits (81), Expect = 0.014
Identities = 30/126 (23%), Positives = 47/126 (37%), Gaps = 17/126 (13%)
Query: 32 FH-----DYEPNLEFDDSELQASLNGDAEEIKVFDTPVPFDYLESPVSDGTIEENFEEEL 86
FH + D + S N +I V+DT FD + V G+I E + +
Sbjct: 427 FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDT---FDGSDLRVLSGSISERIVDCI 483
Query: 87 INAPM--GQLDSLAATCTDDELKDEEDFADVASYGIVDVVGDDMFGRKLIVLSACKLPSN 144
I P+ AT L DF + G+ + + G + V+ A L N
Sbjct: 484 IRLPVKWETTTQFKATHI---L----DFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDIN 536
Query: 145 KELDHG 150
+ D+G
Sbjct: 537 PDDDYG 542
Score = 33.5 bits (76), Expect = 0.066
Identities = 36/237 (15%), Positives = 67/237 (28%), Gaps = 92/237 (38%)
Query: 12 IRNAIASNNDEETPYPSLSDFHDYEPNLEFDDSELQASLNGDAEEIKVF---DTPVPFDY 68
I+N I + + P+ S L +A G+A+ + +F
Sbjct: 123 IKNYITARIMAKRPFDKKS-----NSAL------FRAVGEGNAQLVAIFGGQ-------- 163
Query: 69 LESPVSDGTIEENFEE--ELINAPMGQLDSL---AATCTDDELKDEEDFADVASYGIVDV 123
G ++ FEE +L + L +A + ++ D V + G+ ++
Sbjct: 164 -------GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL-NI 215
Query: 124 V----------GDDMFGR-----KLIVLS-------ACKLPSNKELDHGRLLGYLTYVLD 161
+ D LI + KL G L YL
Sbjct: 216 LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKL---LGFTPGELRSYLK---- 268
Query: 162 KFVEQDYSLVYFHYGLTSKNK---------PSLSWLWSAYRAFDRKYKKNLKALYLV 209
G T ++ + SW +F +K + L+ +
Sbjct: 269 --------------GATGHSQGLVTAVAIAETDSW-----ESFFVSVRKAITVLFFI 306
Score = 31.9 bits (72), Expect = 0.22
Identities = 49/271 (18%), Positives = 79/271 (29%), Gaps = 106/271 (39%)
Query: 15 AIASNNDEETPYPSLSD-----F------HDYEPNLEFDDSELQASL-NGDAEEIKVFDT 62
AIA + E+ + S+ F ++ PN S L+ SL N + +
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP-----S 336
Query: 63 P------VPFDYLESPVSDGTIEENFEEE-----LINAPM-----GQLDSLAATCTDDEL 106
P + + ++ V + T + L+N G SL L
Sbjct: 337 PMLSISNLTQEQVQDYV-NKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL--TL 393
Query: 107 KDEEDFADVASYGIVDVVGDD-----MFGRKLIVLSACKLP------SNKELDHGRLLGY 155
+ + A G+ D RKL S LP S+
Sbjct: 394 RKAK-----APSGL------DQSRIPFSERKL-KFSNRFLPVASPFHSH----------L 431
Query: 156 LTYVLDKFVEQDYSLVYFHYGLTSKNKPSLSWLWSA-------YRAFD----RKYKKNLK 204
L D + +D L N ++A Y FD R ++
Sbjct: 432 LVPASDL-INKD---------LVKNN-----VSFNAKDIQIPVYDTFDGSDLRVLSGSIS 476
Query: 205 ALYLVHPTGFIRVVLQIFKAVPVDFRTTLDL 235
R+V I + +PV + TT
Sbjct: 477 E----------RIVDCIIR-LPVKWETTTQF 496
>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 = 31.7 bits (71), Expect = 0.23
Identities = 21/169 (12%), Positives = 45/169 (26%), Gaps = 70/169 (41%)
Query: 33 HDYEPNLEFDDSELQASLNGDAEEIKVFDTPVPFDYLESPVSDGTIEENFEEELINAPMG 92
H + +++F+ E Q D + + ++ V + F+ + +
Sbjct: 1 HHHHHHMDFETGEHQYQ-YKD----------ILSVFEDAFVDN------FDCKDV----- 38
Query: 93 QLDSLAATCTDDELKDEEDFADVASYGIVDVVGDDMFGRKLIVLSACKLPSNKELDHGRL 152
D + + +E+ I+ +L L
Sbjct: 39 -QDMPKSILSKEEIDH-----------IIMSKDAVSGTLRLFWT---------------L 71
Query: 153 LGYLTYVLDKFVE----QDYSLVYFHYGLTSKNKPSLSWLWSAYRAFDR 197
L ++ KFVE +Y +L S + R
Sbjct: 72 LSKQEEMVQKFVEEVLRINYK-----------------FLMSPIKTEQR 103
>1kcz_A Beta-methylaspartase; beta zigzag, alpha/beta-barrel, lyase; 1.90A
{Clostridium tetanomorphum} SCOP: c.1.11.2 d.54.1.1 PDB:
1kd0_A* 3zvi_A 3zvh_A
Length = 413
Score = 30.8 bits (69), Expect = 0.38
Identities = 17/99 (17%), Positives = 32/99 (32%), Gaps = 8/99 (8%)
Query: 34 DYEPNLEFD-DSELQASLNGDAEEI-----KVFDTPVPFD-YLESPVSDGTIEENFEE-E 85
DY P D + A+ + D + + + + PF +E P+ ++ E
Sbjct: 230 DYAPIFHIDVYGTIGAAFDVDIKAMADYIQTLAEAAKPFHLRIEGPMDVEDRQKQMEAMR 289
Query: 86 LINAPMGQLDSLAATCTDDELKDEEDFADVASYGIVDVV 124
+ A + A D+ ED +V
Sbjct: 290 DLRAELDGRGVDAELVADEWCNTVEDVKFFTDNKAGHMV 328
>3oyv_A Imelysin; outer membrane protein, extracellular active site, metal
BIN protein, structural genomics; HET: MSE; 1.25A
{Bacteroides ovatus atcc 8483} PDB: 3n8u_A*
Length = 361
Score = 27.1 bits (59), Expect = 5.3
Identities = 19/110 (17%), Positives = 28/110 (25%), Gaps = 8/110 (7%)
Query: 4 DYQPNFPGIRNAIASNNDEETPYPSLSDFHDYEPNLEFDDSELQASLNG--DAEEIKVFD 61
DY N IRNA + D SLS + +S L + + D
Sbjct: 124 DYTNNIYSIRNAYYGSLDGNINANSLSTV------IAGANSSLDTKIKNAIQKAAKAIQD 177
Query: 62 TPVPFDYLESPVSDGTIEENFEEELINAPMGQLDSLAATCTDDELKDEED 111
P PF + E +A + +
Sbjct: 178 IPQPFRNHIPSNETVAAMDACAELESILKNDLKSYIANNSNNINTDAVLN 227
>3hsr_A HTH-type transcriptional regulator SARZ; helix-turn-helix, cysteine
disulfide, MARR-family transcript regulator,
DNA-binding; 1.90A {Staphylococcus aureus subsp} PDB:
3hse_A 3hrm_A
Length = 140
Score = 25.7 bits (57), Expect = 9.0
Identities = 5/24 (20%), Positives = 10/24 (41%)
Query: 188 LWSAYRAFDRKYKKNLKALYLVHP 211
+ + + +KY LK L +
Sbjct: 14 FYVSSKEIIKKYTNYLKEYDLTYT 37
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 0.138 0.407
Gapped
Lambda K H
0.267 0.0576 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,992,969
Number of extensions: 243020
Number of successful extensions: 463
Number of sequences better than 10.0: 1
Number of HSP's gapped: 458
Number of HSP's successfully gapped: 23
Length of query: 242
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 151
Effective length of database: 4,160,982
Effective search space: 628308282
Effective search space used: 628308282
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: 56 (25.7 bits)